-- dump date 20111121_011039 -- class Genbank::misc_feature -- table misc_feature_note -- id note 456827000001 chromosomal replication initiation protein; Reviewed; Region: dnaA; PRK00149 456827000002 hypothetical protein; Validated; Region: PRK06672 456827000003 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes...; Region: AAA; cd00009 456827000004 Walker A motif; other site 456827000005 ATP binding site [chemical binding]; other site 456827000006 Walker B motif; other site 456827000007 arginine finger; other site 456827000008 C-terminal domain of bacterial DnaA proteins. The DNA-binding C-terminal domain of DnaA contains a helix-turn-helix motif that specifically interacts with the DnaA box, a 9-mer motif that occurs repetitively in the replication origin oriC. Multiple...; Region: Bac_DnaA_C; cd06571 456827000009 DnaA box-binding interface [nucleotide binding]; other site 456827000010 peptidylprolyl isomerase; Provisional; Region: prsA; PRK00059 456827000011 peptidyl-prolyl cis-trans isomerase SurA; Provisional; Region: PRK10770 456827000012 SurA N-terminal domain; Region: SurA_N; pfam09312 456827000013 PPIC-type PPIASE domain; Region: Rotamase; cl08278 456827000014 PPIC-type PPIASE domain; Region: Rotamase; cl08278 456827000015 Phosphatidylglycerophosphatase A; a bacterial membrane-associated enzyme involved in lipid metabolism; Region: PgpA; cd06971 456827000016 tetramer interfaces [polypeptide binding]; other site 456827000017 binuclear metal-binding site [ion binding]; other site 456827000018 Preprotein translocase subunit; Region: YajC; cl00806 456827000019 Polypeptide or peptide deformylase; a family of metalloenzymes that catalyzes the removal of the N-terminal formyl group in a growing polypeptide chain following translation initiation during protein synthesis in prokaryotes. These enzymes utilize Fe(...; Region: Pep_deformylase; cd00487 456827000020 active site 456827000021 catalytic residues [active] 456827000022 metal binding site [ion binding]; metal-binding site 456827000023 methionyl-tRNA formyltransferase; Reviewed; Region: fmt; PRK00005 456827000024 Methionyl-tRNA formyltransferase, N-terminal hydrolase domain; Region: FMT_core_Met-tRNA-FMT_N; cd08646 456827000025 putative active site [active] 456827000026 substrate binding site [chemical binding]; other site 456827000027 putative cosubstrate binding site; other site 456827000028 catalytic site [active] 456827000029 C-terminal domain of Formyltransferase and other enzymes; Region: Met_tRNA_FMT_C; cd08704 456827000030 substrate binding site [chemical binding]; other site 456827000031 Protein of unknown function DUF116; Region: DUF116; cl00800 456827000032 Trypsin-like serine protease; Many of these are synthesized as inactive precursor zymogens that are cleaved during limited proteolysis to generate their active forms. Alignment contains also inactive enzymes that have substitutions of the catalytic...; Region: Tryp_SPc; cl00149 456827000033 YhcR_OBF_like: A subfamily of OB-fold domains similar to the OB folds of Bacillus subtilis YhcR. YhcR is a sugar-nonspecific nuclease, which is active in the presence of Ca2+ and Mn2+. It cleaves RNA endonucleolytically, producing 3'-monophosphate...; Region: YhcR_OBF_like; cd04486 456827000034 generic binding surface I; other site 456827000035 generic binding surface II; other site 456827000036 Type II cohesin domain, interaction partner of dockerin; Region: Type_II_cohesin; cd08547 456827000037 dockerin binding interface; other site 456827000038 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 456827000039 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 456827000040 active site 456827000041 metal binding site [ion binding]; metal-binding site 456827000042 Radical SAM superfamily. Enzymes of this family generate radicals by combining a 4Fe-4S cluster and S-adenosylmethionine (SAM) in close proximity. They are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster...; Region: Radical_SAM; cd01335 456827000043 FeS/SAM binding site; other site 456827000044 PAP2_like_5 proteins. PAP2 is a super-family of phosphatases and haloperoxidases. This subgroup, which is specific to bacteria, lacks functional characterization and may act as a membrane-associated lipid phosphatase; Region: PAP2_like_5; cd03394 456827000045 active site 456827000046 Predicted Fe-S oxidoreductases [General function prediction only]; Region: COG0535 456827000047 Radical SAM superfamily. Enzymes of this family generate radicals by combining a 4Fe-4S cluster and S-adenosylmethionine (SAM) in close proximity. They are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster...; Region: Radical_SAM; cd01335 456827000048 FeS/SAM binding site; other site 456827000049 A new structural DNA glycosylase; Region: AlkD_like; cl11434 456827000050 rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: LasT; COG0565 456827000051 SpoU rRNA Methylase family; Region: SpoU_methylase; cl00362 456827000052 Peptidase family C25; Region: Peptidase_C25; pfam01364 456827000053 Flagellar hook capping protein; Region: FlgD; cl04347 456827000054 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 456827000055 putative acyl-acceptor binding pocket; other site 456827000056 Protein of unknown function (DUF3098); Region: DUF3098; pfam11297 456827000057 Protein of unknown function DUF58; Region: DUF58; pfam01882 456827000058 Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of...; Region: vWFA; cl00057 456827000059 Fumarate hydratase (Fumerase); Region: Fumerase; cl00851 456827000060 Fumarase C-terminus; Region: Fumerase_C; cl00795 456827000061 Apolipoprotein A1/A4/E domain; Region: Apolipoprotein; pfam01442 456827000062 Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all...; Region: FN3; cl00065 456827000063 Protein of unknown function (DUF2809); Region: DUF2809; pfam10990 456827000064 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 456827000065 dihydrodipicolinate synthase; Region: dapA; TIGR00674 456827000066 dimer interface [polypeptide binding]; other site 456827000067 active site 456827000068 catalytic residue [active] 456827000069 Predicted Zn-dependent peptidases, insulinase-like [General function prediction only]; Region: COG1026 456827000070 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 456827000071 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 456827000072 Peptidase M16C associated; Region: M16C_assoc; pfam08367 456827000073 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 456827000074 YjeQ/EngC. YjeQ (YloQ in Bacillus subtilis) represents a protein family whose members are broadly conserved in bacteria and have been shown to be essential to the growth of E. coli and B. subtilis. Proteins of the YjeQ family contain all sequence...; Region: YjeQ_engC; cd01854 456827000075 GTPase/OB domain interface [polypeptide binding]; other site 456827000076 ribosome small subunit-dependent GTPase A; Region: TIGR00157 456827000077 GTPase/Zn-binding domain interface [polypeptide binding]; other site 456827000078 GTP/Mg2+ binding site [chemical binding]; other site 456827000079 G4 box; other site 456827000080 G5 box; other site 456827000081 G1 box; other site 456827000082 Switch I region; other site 456827000083 G2 box; other site 456827000084 G3 box; other site 456827000085 Switch II region; other site 456827000086 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; cl01255 456827000087 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: RecN; COG0497 456827000088 RecN ATPase involved in DNA repair; ABC (ATP-binding cassette) transporter nucleotide-binding domain; ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds including sugars, ions, peptides...; Region: ABC_RecN; cd03241 456827000089 Walker A/P-loop; other site 456827000090 ATP binding site [chemical binding]; other site 456827000091 Q-loop/lid; other site 456827000092 RecN ATPase involved in DNA repair; ABC (ATP-binding cassette) transporter nucleotide-binding domain; ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds including sugars, ions, peptides...; Region: ABC_RecN; cd03241 456827000093 ABC transporter signature motif; other site 456827000094 Walker B; other site 456827000095 D-loop; other site 456827000096 H-loop/switch region; other site 456827000097 NfeD-like C-terminal, partner-binding; Region: NfeD; cl00686 456827000098 Predicted EndoIII-related endonuclease [DNA replication, recombination, and repair]; Region: Nth; COG0177 456827000099 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 456827000100 minor groove reading motif; other site 456827000101 helix-hairpin-helix signature motif; other site 456827000102 substrate binding pocket [chemical binding]; other site 456827000103 active site 456827000104 Iron-sulfur binding domain of endonuclease III; Region: EndIII_4Fe-2S; pfam10576 456827000105 Uncharacterised ACR, COG2135; Region: DUF159; cl03646 456827000106 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems...; Region: REC; cd00156 456827000107 active site 456827000108 phosphorylation site [posttranslational modification] 456827000109 intermolecular recognition site; other site 456827000110 dimerization interface [polypeptide binding]; other site 456827000111 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 456827000112 Zn2+ binding site [ion binding]; other site 456827000113 Mg2+ binding site [ion binding]; other site 456827000114 Coenzyme A transferase; Region: CoA_trans; cl00773 456827000115 Coenzyme A transferase; Region: CoA_trans; cl00773 456827000116 GTP-binding protein HflX; Region: GTP_HflX; TIGR03156 456827000117 HflX subfamily. A distinct conserved domain with a glycine-rich segment N-terminal of the GTPase domain characterizes the HflX subfamily. The E. coli HflX has been implicated in the control of the lambda cII repressor proteolysis, but the actual...; Region: HflX; cd01878 456827000118 G1 box; other site 456827000119 GTP/Mg2+ binding site [chemical binding]; other site 456827000120 Switch I region; other site 456827000121 G2 box; other site 456827000122 G3 box; other site 456827000123 Switch II region; other site 456827000124 Predicted GTPase [General function prediction only]; Region: DRG; COG1163 456827000125 G4 box; other site 456827000126 G5 box; other site 456827000127 DNA primase; Validated; Region: dnaG; PRK05667 456827000128 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 456827000129 domain; Region: GreA_GreB_N; pfam03449 456827000130 C-term; Region: GreA_GreB; pfam01272 456827000131 M18 Peptidase Aminopeptidase I; Region: M18_API; cd05659 456827000132 oligomer interface [polypeptide binding]; other site 456827000133 putative active site [active] 456827000134 metal binding site [ion binding]; metal-binding site 456827000135 outer membrane assembly lipoprotein YfiO; Region: OM_YfiO; TIGR03302 456827000136 Nicotinic acid mononucleotide adenylyltransferase [Coenzyme metabolism]; Region: NadD; COG1057 456827000137 Nicotinamide/nicotinate mononucleotide adenylyltransferase; Region: NMNAT; cd02165 456827000138 active site 456827000139 (T/H)XGH motif; other site 456827000140 flagellar basal body rod modification protein; Reviewed; Region: flgD; PRK06655 456827000141 lipoyltransferase and lipoate-protein ligase; Region: lipoyltrans; TIGR00545 456827000142 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; cl14057 456827000143 Bacterial lipoate protein ligase C-terminus; Region: Lip_prot_lig_C; pfam10437 456827000144 Superfamily II DNA/RNA helicases, SNF2 family [Transcription / DNA replication, recombination, and repair]; Region: HepA; COG0553 456827000145 DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region; Region: DEXDc; cd00046 456827000146 ATP binding site [chemical binding]; other site 456827000147 putative Mg++ binding site [ion binding]; other site 456827000148 Helicase superfamily c-terminal domain; associated with DEXDc-, DEAD-, and DEAH-box proteins, yeast initiation factor 4A, Ski2p, and Hepatitis C virus NS3 helicases; this domain is found in a wide variety of helicases and helicase related proteins; may...; Region: HELICc; cd00079 456827000149 nucleotide binding region [chemical binding]; other site 456827000150 ATP-binding site [chemical binding]; other site 456827000151 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 456827000152 Leucyl aminopeptidase (aminopeptidase T) [Amino acid transport and metabolism]; Region: AmpS; COG2309 456827000153 Cleaved Adhesin Domain; Region: Cleaved_Adhesin; pfam07675 456827000154 Flagellar hook capping protein; Region: FlgD; cl04347 456827000155 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 456827000156 ABC transporters, involved in the uptake of siderophores, heme, and vitamin B12, are widely conserved in bacteria and archaea. Only very few species lack representatives of the siderophore family transporters. The E. coli BtuCD protein is an ABC...; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 456827000157 Walker A/P-loop; other site 456827000158 ATP binding site [chemical binding]; other site 456827000159 Q-loop/lid; other site 456827000160 ABC transporter signature motif; other site 456827000161 Walker B; other site 456827000162 D-loop; other site 456827000163 H-loop/switch region; other site 456827000164 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 456827000165 N-terminal plug; other site 456827000166 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 456827000167 ligand-binding site [chemical binding]; other site 456827000168 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3415 456827000169 Integrase core domain; Region: rve; cl01316 456827000170 Integrase core domain; Region: rve; cl01316 456827000171 PEGA domain; Region: PEGA; pfam08308 456827000172 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 456827000173 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 456827000174 ligand binding site [chemical binding]; other site 456827000175 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 456827000176 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 456827000177 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 456827000178 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 456827000179 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 456827000180 Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all...; Region: FN3; cd00063 456827000181 Interdomain contacts; other site 456827000182 Cytokine receptor motif; other site 456827000183 glycine radical enzyme activase, YjjW family; Region: activase_YjjW; TIGR04041 456827000184 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 456827000185 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 456827000186 FtsX-like permease family; Region: FtsX; pfam02687 456827000187 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 456827000188 This family is comprised of MJ0796 ATP-binding cassette, macrolide-specific ABC-type efflux carrier (MacAB), and proteins involved in cell division (FtsE), and release of liporoteins from the cytoplasmic membrane (LolCDE). They are clustered together...; Region: ABC_MJ0796_Lo1CDE_FtsE; cd03255 456827000189 Walker A/P-loop; other site 456827000190 ATP binding site [chemical binding]; other site 456827000191 Q-loop/lid; other site 456827000192 ABC transporter signature motif; other site 456827000193 Walker B; other site 456827000194 D-loop; other site 456827000195 H-loop/switch region; other site 456827000196 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 456827000197 Outer membrane efflux protein; Region: OEP; pfam02321 456827000198 Outer membrane efflux protein; Region: OEP; pfam02321 456827000199 ornithine carbamoyltransferase; Validated; Region: PRK02102 456827000200 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 456827000201 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 456827000202 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy)...; Region: AdoMet_MTases; cl12011 456827000203 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 456827000204 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 456827000205 non-specific DNA binding site [nucleotide binding]; other site 456827000206 salt bridge; other site 456827000207 sequence-specific DNA binding site [nucleotide binding]; other site 456827000208 Domain of unknown function (DUF955); Region: DUF955; cl01076 456827000209 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 456827000210 Active site serine [active] 456827000211 M28, and M42; Region: Zinc_peptidase_like; cl14876 456827000212 metal binding site [ion binding]; metal-binding site 456827000213 Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all...; Region: FN3; cl00065 456827000214 Flagellar hook capping protein; Region: FlgD; cl04347 456827000215 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 456827000216 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 456827000217 NAD(P) binding site [chemical binding]; other site 456827000218 active site 456827000219 polysaccharide export protein Wza; Provisional; Region: PRK15078 456827000220 polysaccharide export protein EpsE; Region: EpsE; TIGR03028 456827000221 polysaccharide export protein EpsE; Region: EpsE; TIGR03028 456827000222 SLBB domain; Region: SLBB; pfam10531 456827000223 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 456827000224 3-amino-5-hydroxybenzoic acid synthase family (AHBA_syn). AHBA_syn family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The members of this CD are involved in various biosynthetic pathways for secondary...; Region: AHBA_syn; cd00616 456827000225 inhibitor-cofactor binding pocket; inhibition site 456827000226 pyridoxal 5'-phosphate binding site [chemical binding]; other site 456827000227 catalytic residue [active] 456827000228 The electron transfer flavoprotein (ETF) serves as a specific electron acceptor for various mitochondrial dehydrogenases. ETF transfers electrons to the main respiratory chain via ETF-ubiquinone oxidoreductase. ETF is an heterodimer that consists of an...; Region: ETF_beta; cd01714 456827000229 Ligand binding site [chemical binding]; other site 456827000230 Prolipoprotein diacylglyceryl transferase; Region: LGT; cl00478 456827000231 adenylosuccinate lyase; Provisional; Region: PRK07492 456827000232 Adenylsuccinate lyase (ASL)_subgroup 1; Region: Adenylsuccinate_lyase_1; cd01360 456827000233 tetramer interface [polypeptide binding]; other site 456827000234 active site 456827000235 Uncharacterized protein conserved in bacteria (DUF2147); Region: DUF2147; cl01951 456827000236 Alpha-crystallin domain (ACD) of alpha-crystallin-type small(s) heat shock proteins (Hsps). sHsps are small stress induced proteins with monomeric masses between 12 -43 kDa, whose common feature is the Alpha-crystallin domain (ACD). sHsps are...; Region: ACD_sHsps-like; cd06464 456827000237 putative dimer interface [polypeptide binding]; other site 456827000238 GTP-binding protein LepA; Provisional; Region: PRK05433 456827000239 LepA subfamily. LepA belongs to the GTPase family of and exhibits significant homology to the translation factors EF-G and EF-Tu, indicating its possible involvement in translation and association with the ribosome. LepA is ubiquitous in bacteria and...; Region: LepA; cd01890 456827000240 G1 box; other site 456827000241 putative GEF interaction site [polypeptide binding]; other site 456827000242 GTP/Mg2+ binding site [chemical binding]; other site 456827000243 Switch I region; other site 456827000244 G2 box; other site 456827000245 G3 box; other site 456827000246 Switch II region; other site 456827000247 G4 box; other site 456827000248 G5 box; other site 456827000249 lepA_II: This subfamily represents the domain II of LepA, a GTP-binding protein localized in the cytoplasmic membrane. The N-terminal domain of LepA shares regions of homology to translation factors. In terms of interaction with the ribosome, EF-G, EF-...; Region: lepA_II; cd03699 456827000250 lepA_C: This family represents the C-terminal region of LepA, a GTP-binding protein localized in the cytoplasmic membrane. LepA is ubiquitous in Bacteria and Eukaryota (e.g. Saccharomyces cerevisiae GUF1p), but is missing from Archaea. LepA exhibits...; Region: lepA_C; cd03709 456827000251 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 456827000252 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 456827000253 outer membrane protein assembly complex, YaeT protein; Region: OM_YaeT; TIGR03303 456827000254 Surface antigen; Region: Bac_surface_Ag; cl03097 456827000255 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 456827000256 non-specific DNA binding site [nucleotide binding]; other site 456827000257 Predicted transcriptional regulator [Transcription]; Region: COG2932 456827000258 salt bridge; other site 456827000259 sequence-specific DNA binding site [nucleotide binding]; other site 456827000260 Peptidase S24 LexA-like proteins are involved in the SOS response leading to the repair of single-stranded DNA within the bacterial cell. This family includes: the lambda repressor CI/C2 family and related bacterial prophage repressor proteins; LexA (...; Region: S24_LexA-like; cd06529 456827000261 Catalytic site [active] 456827000262 hypothetical protein; Provisional; Region: PRK11281 456827000263 RmuC family; Region: RmuC; pfam02646 456827000264 Thiamine pyrophosphokinase; Region: TPK; cd07995 456827000265 active site 456827000266 dimerization interface [polypeptide binding]; other site 456827000267 thiamine binding site [chemical binding]; other site 456827000268 Membrane-bound metallopeptidase [Cell division and chromosome partitioning]; Region: COG4942 456827000269 Peptidase family M23; Region: Peptidase_M23; pfam01551 456827000270 DNA recombination-mediator protein A; Region: DNA_processg_A; cl00695 456827000271 GTPase CgtA; Reviewed; Region: obgE; PRK12299 456827000272 GTP1/OBG; Region: GTP1_OBG; pfam01018 456827000273 Obg subfamily. The Obg nucleotide binding protein subfamily has been implicated in stress response, chromosome partitioning, replication initiation, mycelium development, and sporulation. Obg proteins are among a large group of GTP binding proteins...; Region: Obg; cd01898 456827000274 G1 box; other site 456827000275 GTP/Mg2+ binding site [chemical binding]; other site 456827000276 Switch I region; other site 456827000277 G2 box; other site 456827000278 G3 box; other site 456827000279 Switch II region; other site 456827000280 G4 box; other site 456827000281 G5 box; other site 456827000282 Flagellar hook capping protein; Region: FlgD; cl04347 456827000283 D-glucuronyl C5-epimerase C-terminus; Region: C5-epim_C; pfam06662 456827000284 Transmembrane subunit (TM), of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters involved in the uptake of siderophores, heme, vitamin B12, or the divalent cations Mg2+ and Zn2+. PBP-dependent ABC transporters consist...; Region: TM_ABC_iron-siderophores_like; cd06550 456827000285 ABC-ATPase subunit interface; other site 456827000286 dimer interface [polypeptide binding]; other site 456827000287 putative PBP binding regions; other site 456827000288 ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: ZnuC; COG1121 456827000289 ABC component of the metal-type transporters. This family includes transporters involved in the uptake of various metallic cations such as iron, manganese, and zinc. The ATPases of this group of transporters are very similar to members of iron-...; Region: ABC_Metallic_Cations; cd03235 456827000290 Helical backbone metal receptor (TroA-like domain). These proteins have been shown to function in the ABC transport of ferric siderophores and metal ions such as Mn2+, Fe3+, Cu2+ and/or Zn2+. Their ligand binding site is formed in the interface...; Region: TroA-like; cl00262 456827000291 Periplasmic solute binding protein family; Region: SBP_bac_9; pfam01297 456827000292 intersubunit interface [polypeptide binding]; other site 456827000293 multifunctional aminopeptidase A; Provisional; Region: PRK00913 456827000294 Cytosol aminopeptidase family, N-terminal and catalytic domains. Family M17 contains zinc- and manganese-dependent exopeptidases ( EC 3.4.11.1), including leucine aminopeptidase. They catalyze removal of amino acids from the N-terminus of a protein...; Region: Peptidase_M17; cd00433 456827000295 interface (dimer of trimers) [polypeptide binding]; other site 456827000296 Substrate-binding/catalytic site; other site 456827000297 Zn-binding sites [ion binding]; other site 456827000298 tol-pal system beta propeller repeat protein TolB; Region: propeller_TolB; TIGR02800 456827000299 Surface antigen; Region: Bac_surface_Ag; cl03097 456827000300 virulence factor Mce family protein; Region: Mtu_fam_mce; TIGR00996 456827000301 mce related protein; Region: MCE; cl03606 456827000302 Radical SAM superfamily. Enzymes of this family generate radicals by combining a 4Fe-4S cluster and S-adenosylmethionine (SAM) in close proximity. They are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster...; Region: Radical_SAM; cl14056 456827000303 Membrane transport protein; Region: Mem_trans; cl09117 456827000304 Phosphate transporter family; Region: PHO4; cl00396 456827000305 Phosphate transport regulator (distant homolog of PhoU) [Inorganic ion transport and metabolism]; Region: COG1392 456827000306 histidinol-phosphate aminotransferase; Region: hisC; TIGR01141 456827000307 Aspartate aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). Pyridoxal phosphate combines with an alpha-amino acid to form a compound called a Schiff base or aldimine...; Region: AAT_like; cd00609 456827000308 pyridoxal 5'-phosphate binding site [chemical binding]; other site 456827000309 homodimer interface [polypeptide binding]; other site 456827000310 catalytic residue [active] 456827000311 CpxP component of the bacterial Cpx-two-component system and related proteins; Region: CpxP_like; cl01482 456827000312 dimer interface [polypeptide binding]; other site 456827000313 Predicted integral membrane protein [Function unknown]; Region: COG5660 456827000314 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 456827000315 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 456827000316 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial...; Region: Sigma70_r4; cd06171 456827000317 DNA binding residues [nucleotide binding] 456827000318 ABC-type transport system, involved in lipoprotein release, permease component [Cell envelope biogenesis, outer membrane]; Region: LolE; COG4591 456827000319 putative transposase OrfB; Reviewed; Region: PHA02517 456827000320 Integrase core domain; Region: rve; cl01316 456827000321 MjaI restriction endonuclease; Region: RE_MjaI; pfam09568 456827000322 DNA modification methylase [DNA replication, recombination, and repair]; Region: COG0863 456827000323 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy)...; Region: AdoMet_MTases; cl12011 456827000324 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy)...; Region: AdoMet_MTases; cl12011 456827000325 Plasmid pRiA4b ORF-3-like protein; Region: PRiA4_ORF3; pfam07929 456827000326 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy)...; Region: AdoMet_MTases; cl12011 456827000327 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy)...; Region: AdoMet_MTases; cl12011 456827000328 tRNA modification GTPase TrmE; Reviewed; Region: trmE; PRK05291 456827000329 GTP-binding protein TrmE N-terminus; Region: TrmE_N; pfam10396 456827000330 TrmE (MnmE, ThdF, MSS1) is a 3-domain protein found in bacteria and eukaryotes. It controls modification of the uridine at the wobble position (U34) of tRNAs that read codons ending with A or G in the mixed codon family boxes. TrmE contains a GTPase...; Region: trmE; cd04164 456827000331 G1 box; other site 456827000332 GTP/Mg2+ binding site [chemical binding]; other site 456827000333 Switch I region; other site 456827000334 G2 box; other site 456827000335 Switch II region; other site 456827000336 G3 box; other site 456827000337 G4 box; other site 456827000338 G5 box; other site 456827000339 Catalytic cysteine-containing C-terminus of GTPase, MnmE; Region: GTPase_Cys_C; pfam12631 456827000340 1-deoxy-D-xylulose-5-phosphate synthase; Provisional; Region: PRK05444 456827000341 TPP-binding module; 1-Deoxy-D-xylulose-5-phosphate synthase (DXS) is a regulatory enzyme of the mevalonate-independent pathway involved in terpenoid biosynthesis. Terpeniods are plant natural products with important pharmaceutical activity. DXS...; Region: TPP_DXS; cd02007 456827000342 TPP-binding site; other site 456827000343 Pyrimidine (PYR) binding domain of 1-deoxy-D-xylulose-5-phosphate synthase (DXS), transketolase (TK), and related proteins; Region: TPP_PYR_DXS_TK_like; cd07033 456827000344 PYR/PP interface [polypeptide binding]; other site 456827000345 dimer interface [polypeptide binding]; other site 456827000346 TPP binding site [chemical binding]; other site 456827000347 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 456827000348 PAP2_like proteins, Aur1_like subfamily. Yeast Aur1p or Ipc1p is necessary for the addition of inositol phosphate to ceramide, an essential step in yeast sphingolipid synthesis, and is the target of several antifungal compounds such as aureobasidin; Region: PAP2_Aur1_like; cd03386 456827000349 active site 456827000350 Domain of unknown function (DUF205); Region: DUF205; cl00410 456827000351 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, YBL036c-like proteins; Region: PLPDE_III_YBL036c_like; cd00635 456827000352 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 456827000353 catalytic residue [active] 456827000354 Peptidase family C25; Region: Peptidase_C25; pfam01364 456827000355 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 456827000356 Dihydroorotase and related cyclic amidohydrolases [Nucleotide transport and metabolism]; Region: PyrC; COG0044 456827000357 Superfamily of metallo-dependent hydrolases (also called amidohydrolase superfamily) is a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the members have...; Region: metallo-dependent_hydrolases; cl00281 456827000358 active site 456827000359 ABC-type transport system involved in resistance to organic solvents, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2C; COG1463 456827000360 mce related protein; Region: MCE; cl03606 456827000361 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy)...; Region: AdoMet_MTases; cl12011 456827000362 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy)...; Region: AdoMet_MTases; cd02440 456827000363 S-adenosylmethionine binding site [chemical binding]; other site 456827000364 The M14 family of metallocarboxypeptidases (MCPs) are zinc-binding carboxypeptidases (CPs) which hydrolyze single, C-terminal amino acids from polypeptide chains, and have a recognition site for the free C-terminal carboxyl group, which is a key...; Region: Peptidase_M14_like; cl11393 456827000365 active site 456827000366 Zn-binding site [ion binding]; other site 456827000367 Flagellar hook capping protein; Region: FlgD; cl04347 456827000368 Ribosomal protein L31; Region: Ribosomal_L31; cl00377 456827000369 Protein of unknown function (DUF1385); Region: DUF1385; cl01595 456827000370 peptide chain release factor 1; Validated; Region: prfA; PRK00591 456827000371 RF-1 domain; Region: RF-1; cl02875 456827000372 RF-1 domain; Region: RF-1; cl02875 456827000373 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 456827000374 Domain of unknown function DUF21; Region: DUF21; pfam01595 456827000375 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains associated with the CorC_HlyC domain. CorC_HlyC is a transporter associated domain. This small domain is found in Na+/H+ antiporters, in proteins involved in...; Region: CBS_pair_CorC_HlyC_assoc; cd04590 456827000376 Transporter associated domain; Region: CorC_HlyC; pfam03471 456827000377 glutamate formiminotransferase; Region: FtcD; TIGR02024 456827000378 Formiminotransferase domain, N-terminal subdomain; Region: FTCD_N; pfam07837 456827000379 Formiminotransferase domain; Region: FTCD; pfam02971 456827000380 Formiminotransferase-cyclodeaminase; Region: FTCD_C; cl01350 456827000381 Uracil DNA glycosylase superfamily; Region: UDG; cl00483 456827000382 S4/Hsp/ tRNA synthetase RNA-binding domain; The domain surface is populated by conserved, charged residues that define a likely RNA-binding site; Found in stress proteins, ribosomal proteins and tRNA synthetases; This may imply a hitherto unrecognized...; Region: S4; cl09940 456827000383 Acetokinase family; Region: Acetate_kinase; cl01029 456827000384 Uncharacterized conserved protein (DUF2156); Region: DUF2156; cl12090 456827000385 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 456827000386 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 456827000387 Coenzyme A binding pocket [chemical binding]; other site 456827000388 Uncharacterized protein related to the periplasmic component of the Tol biopolymer transport system [Function unknown]; Region: COG4946 456827000389 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 456827000390 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 456827000391 Periplasmic protease [Cell envelope biogenesis, outer membrane]; Region: Prc; COG0793 456827000392 PDZ domain of C-terminal processing-, tail-specific-, and tricorn proteases, which function in posttranslational protein processing, maturation, and disassembly or degradation, in Bacteria, Archaea, and plant chloroplasts. May be responsible for...; Region: PDZ_CTP_protease; cd00988 456827000393 protein binding site [polypeptide binding]; other site 456827000394 Tricorn protease; serine protease family S41; Region: Peptidase_S41_TRI; cd07562 456827000395 Domain interface; other site 456827000396 Peptide binding site; other site 456827000397 Active site tetrad [active] 456827000398 Curli production assembly/transport component CsgG; Region: CsgG; cl00639 456827000399 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4259 456827000400 Putative bacterial lipoprotein (DUF799); Region: DUF799; cl01813 456827000401 Nidogen-like; Region: NIDO; cl02648 456827000402 WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions including adaptor/regulatory modules in signal transduction, pre-mRNA processing and cytoskeleton assembly; typically contains a GH dipeptide 11-24 residues...; Region: WD40; cl02567 456827000403 structural tetrad; other site 456827000404 polycystic kidney disease I (PKD) domain; similar to other cell-surface modules, with an IG-like fold; domain probably functions as a ligand binding site in protein-protein or protein-carbohydrate interactions; a single instance of the repeat is...; Region: PKD; cl14635 456827000405 Leucine-rich repeats (LRRs), ribonuclease inhibitor (RI)-like subfamily. LRRs are 20-29 residue sequence motifs present in many proteins that participate in protein-protein interactions and have different functions and cellular locations. LRRs...; Region: LRR_RI; cl14636 456827000406 Leucine Rich repeats (2 copies); Region: LRR_4; pfam12799 456827000407 Leucine-rich repeats; other site 456827000408 Leucine Rich repeats (2 copies); Region: LRR_4; pfam12799 456827000409 Substrate binding site [chemical binding]; other site 456827000410 Leucine Rich repeats (2 copies); Region: LRR_4; pfam12799 456827000411 Leucine Rich repeats (2 copies); Region: LRR_4; pfam12799 456827000412 Leucine-rich repeat (LRR) protein [Function unknown]; Region: COG4886 456827000413 Leucine Rich repeats (2 copies); Region: LRR_4; pfam12799 456827000414 Leucine-rich repeats (LRRs), ribonuclease inhibitor (RI)-like subfamily. LRRs are 20-29 residue sequence motifs present in many proteins that participate in protein-protein interactions and have different functions and cellular locations. LRRs...; Region: LRR_RI; cl14636 456827000415 Leucine Rich repeats (2 copies); Region: LRR_4; pfam12799 456827000416 Leucine-rich repeats; other site 456827000417 Substrate binding site [chemical binding]; other site 456827000418 Leucine Rich repeats (2 copies); Region: LRR_4; pfam12799 456827000419 Leucine Rich repeats (2 copies); Region: LRR_4; pfam12799 456827000420 Leucine Rich repeats (2 copies); Region: LRR_4; pfam12799 456827000421 Leucine Rich repeats (2 copies); Region: LRR_4; pfam12799 456827000422 Leucine Rich repeats (2 copies); Region: LRR_4; pfam12799 456827000423 Leucine Rich repeats (2 copies); Region: LRR_4; pfam12799 456827000424 Leucine-rich repeats (LRRs), ribonuclease inhibitor (RI)-like subfamily. LRRs are 20-29 residue sequence motifs present in many proteins that participate in protein-protein interactions and have different functions and cellular locations. LRRs...; Region: LRR_RI; cl14636 456827000425 Leucine-rich repeats; other site 456827000426 Leucine Rich repeats (2 copies); Region: LRR_4; pfam12799 456827000427 Substrate binding site [chemical binding]; other site 456827000428 Leucine Rich repeats (2 copies); Region: LRR_4; pfam12799 456827000429 Leucine Rich repeats (2 copies); Region: LRR_4; pfam12799 456827000430 Leucine Rich repeats (2 copies); Region: LRR_4; pfam12799 456827000431 Leucine-rich repeat (LRR) protein [Function unknown]; Region: COG4886 456827000432 D12 class N6 adenine-specific DNA methyltransferase; Region: MethyltransfD12; cl00408 456827000433 D12 class N6 adenine-specific DNA methyltransferase; Region: MethyltransfD12; cl00408 456827000434 Phage capsid family; Region: Phage_capsid; pfam05065 456827000435 Phage-related protein [Function unknown]; Region: COG4695; cl01923 456827000436 phage portal protein, PBSX family; Region: portal_PBSX; TIGR01540 456827000437 lysozyme_like domain. This contains several members including Soluble Lytic Transglycosylases (SLT), Goose Egg-White Lysozymes (GEWL), Hen Egg-White Lysozymes (HEWL), chitinases, bacteriophage lambda lysozymes, endolysins, autolysins, and chitosanases...; Region: lysozyme_like; cl00222 456827000438 catalytic residue [active] 456827000439 Predicted type IV restriction endonuclease [Defense mechanisms]; Region: COG2810 456827000440 HsdM N-terminal domain; Region: HsdM_N; pfam12161 456827000441 N-6 DNA Methylase; Region: N6_Mtase; pfam02384 456827000442 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy)...; Region: AdoMet_MTases; cl12011 456827000443 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 456827000444 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 456827000445 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; pfam04313 456827000446 Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]; Region: COG0610 456827000447 DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region; Region: DEXDc; cl14882 456827000448 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 456827000449 non-specific DNA binding site [nucleotide binding]; other site 456827000450 salt bridge; other site 456827000451 sequence-specific DNA binding site [nucleotide binding]; other site 456827000452 Domain of unknown function (DUF955); Region: DUF955; cl01076 456827000453 PIN (PilT N terminus) domain: Superfamily; Region: PIN_SF; cl14812 456827000454 Phage Mu protein F like protein; Region: Phage_Mu_F; cl10072 456827000455 Terminase-like family; Region: Terminase_6; pfam03237 456827000456 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 456827000457 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 456827000458 Protein of unknown function (DUF3164); Region: DUF3164; pfam11363 456827000459 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 456827000460 Walker A/P-loop; other site 456827000461 ATP binding site [chemical binding]; other site 456827000462 ABC transporter signature motif; other site 456827000463 Walker B; other site 456827000464 D-loop; other site 456827000465 Integrase core domain; Region: rve; cl01316 456827000466 Mu transposase, C-terminal; Region: Mu-transpos_C; pfam09299 456827000467 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 456827000468 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 456827000469 non-specific DNA binding site [nucleotide binding]; other site 456827000470 Predicted transcriptional regulator [Transcription]; Region: COG2932 456827000471 salt bridge; other site 456827000472 sequence-specific DNA binding site [nucleotide binding]; other site 456827000473 Peptidase S24 LexA-like proteins are involved in the SOS response leading to the repair of single-stranded DNA within the bacterial cell. This family includes: the lambda repressor CI/C2 family and related bacterial prophage repressor proteins; LexA (...; Region: S24_LexA-like; cd06529 456827000474 Catalytic site [active] 456827000475 cyclase homology domain; Region: CHD; cd07302 456827000476 nucleotidyl binding site; other site 456827000477 metal binding site [ion binding]; metal-binding site 456827000478 dimer interface [polypeptide binding]; other site 456827000479 cyclase homology domain; Region: CHD; cd07302 456827000480 nucleotidyl binding site; other site 456827000481 metal binding site [ion binding]; metal-binding site 456827000482 dimer interface [polypeptide binding]; other site 456827000483 Predicted ATPase [General function prediction only]; Region: COG3899 456827000484 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi...; Region: TPR; cd00189 456827000485 binding surface 456827000486 TPR motif; other site 456827000487 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi...; Region: TPR; cd00189 456827000488 binding surface 456827000489 TPR motif; other site 456827000490 Immune inhibitor A peptidase M6; Region: Peptidase_M6; cl11525 456827000491 This family is most closely related to the GT1 family of glycosyltransferases. wlbH in Bordetella parapertussis has been shown to be required for the biosynthesis of a trisaccharide that, when attached to the B. pertussis lipopolysaccharide (LPS) core (; Region: GT1_wlbH_like; cd03798 456827000492 Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. The acceptor molecule can be a lipid, a protein, a heterocyclic compound, or another carbohydrate...; Region: Glycosyltransferase_GTB_type; cl10013 456827000493 SAM-dependent methyltransferases [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]; Region: SmtA; COG0500 456827000494 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy)...; Region: AdoMet_MTases; cd02440 456827000495 S-adenosylmethionine binding site [chemical binding]; other site 456827000496 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 456827000497 Polysaccharide biosynthesis protein; Region: Polysacc_synt; cl10513 456827000498 Uncharacterised BCR, COG1649; Region: DUF187; pfam02638 456827000499 exodeoxyribonuclease VII large subunit; Reviewed; Region: xseA; PRK00286 456827000500 ExoVII_LU_OBF: A subfamily of OB folds corresponding to the N-terminal OB-fold domain of Escherichia coli exodeoxyribonuclease VII (ExoVII) large subunit. E. coli ExoVII is composed of two non-identical subunits. E. coli ExoVII is a single-strand-...; Region: ExoVII_LU_OBF; cd04489 456827000501 generic binding surface II; other site 456827000502 generic binding surface I; other site 456827000503 Proteins of this family catalyze the reduction of flavin or nitrocompounds using NAD(P)H as electron donor in a obligatory two-electron transfer, utilizing FMN or FAD as cofactor. They are often found to be homodimers. Enzymes of this family are...; Region: Nitro_FMN_reductase; cd02062 456827000504 FMN binding site [chemical binding]; other site 456827000505 dimer interface [polypeptide binding]; other site 456827000506 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 456827000507 ribonuclease III; Reviewed; Region: rnc; PRK00102 456827000508 RIBOc. Ribonuclease III C terminal domain. This group consists of eukaryotic, bacterial and archeal ribonuclease III (RNAse III) proteins. RNAse III is a double stranded RNA-specific endonuclease. Prokaryotic RNAse III is important in post-...; Region: RIBOc; cd00593 456827000509 dimerization interface [polypeptide binding]; other site 456827000510 active site 456827000511 metal binding site [ion binding]; metal-binding site 456827000512 Double-stranded RNA binding motif. Binding is not sequence specific but is highly specific for double stranded RNA. Found in a variety of proteins including dsRNA dependent protein kinase PKR, RNA helicases, Drosophila staufen protein, E. coli RNase...; Region: DSRM; cd00048 456827000513 dsRNA binding site [nucleotide binding]; other site 456827000514 beta-ketoacyl-acyl-carrier-protein synthase II; Region: fabF; TIGR03150 456827000515 Beta-ketoacyl-acyl carrier protein (ACP) synthase (KAS), type I and II. KASs are responsible for the elongation steps in fatty acid biosynthesis. KASIII catalyses the initial condensation and KAS I and II catalyze further elongation steps by Claisen...; Region: KAS_I_II; cd00834 456827000516 dimer interface [polypeptide binding]; other site 456827000517 active site 456827000518 Phosphopantetheine attachment site; Region: PP-binding; cl09936 456827000519 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 456827000520 3-oxoacyl-(acyl-carrier-protein) reductase; Region: 3oxo_ACP_reduc; TIGR01830 456827000521 NAD(P) binding site [chemical binding]; other site 456827000522 homotetramer interface [polypeptide binding]; other site 456827000523 homodimer interface [polypeptide binding]; other site 456827000524 active site 456827000525 Acyl transferase domain; Region: Acyl_transf_1; cl08282 456827000526 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 456827000527 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09352 456827000528 Ketoacyl-acyl carrier protein synthase III (KASIII) initiates the elongation in type II fatty acid synthase systems. It is found in bacteria and plants. Elongation of fatty acids in the type II systems occurs by Claisen condensation of malonyl-acyl...; Region: KAS_III; cd00830 456827000529 dimer interface [polypeptide binding]; other site 456827000530 active site 456827000531 CoA binding pocket [chemical binding]; other site 456827000532 Phosphate acetyl/butaryl transferase; Region: PTA_PTB; cl00390 456827000533 Ribosomal L32p protein family; Region: Ribosomal_L32p; cl09115 456827000534 Peptidase domain in the S8 and S53 families; Region: Peptidases_S8_S53; cl10459 456827000535 Peptidase domain in the S8 and S53 families; Region: Peptidases_S8_S53; cl10459 456827000536 active site 456827000537 catalytic residues [active] 456827000538 valyl-tRNA synthetase; Reviewed; Region: valS; PRK05729 456827000539 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 456827000540 active site 456827000541 HIGH motif; other site 456827000542 nucleotide binding site [chemical binding]; other site 456827000543 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 456827000544 active site 456827000545 KMSKS motif; other site 456827000546 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 456827000547 tRNA binding surface [nucleotide binding]; other site 456827000548 anticodon binding site; other site 456827000549 Valyl tRNA synthetase tRNA binding arm; Region: Val_tRNA-synt_C; pfam10458 456827000550 6-pyruvoyl-tetrahydropterin synthase related domain; membrane protein; Region: PTPS_related; pfam10131 456827000551 Predicted membrane protein [Function unknown]; Region: COG4485 456827000552 4-hydroxybenzoyl-CoA thioesterase (4HBT). Catalyzes the final step in the 4-chlorobenzoate degradation pathway in which 4-chlorobenzoate is converted to 4-hydroxybenzoate in certain soil-dwelling bacteria. 4HBT forms a homotetramer with four active...; Region: 4HBT; cd00586 456827000553 active site 456827000554 The eukaryotic Sm and Sm-like (LSm) proteins associate with RNA to form the core domain of the ribonucleoprotein particles involved in a variety of RNA processing events including pre-mRNA splicing, telomere replication, and mRNA degradation. Members...; Region: Sm_like; cl00259 456827000555 ribosome maturation protein RimP; Reviewed; Region: PRK00092 456827000556 The eukaryotic Sm and Sm-like (LSm) proteins associate with RNA to form the core domain of the ribonucleoprotein particles involved in a variety of RNA processing events including pre-mRNA splicing, telomere replication, and mRNA degradation. Members...; Region: Sm_like; cl00259 456827000557 Sm1 motif; other site 456827000558 D3 - B interaction site; other site 456827000559 D1 - D2 interaction site; other site 456827000560 Hfq - Hfq interaction site; other site 456827000561 RNA binding pocket [nucleotide binding]; other site 456827000562 Sm2 motif; other site 456827000563 transcription termination factor NusA; Region: NusA; TIGR01953 456827000564 NusA N-terminal domain; Region: NusA_N; pfam08529 456827000565 S1_NusA: N-utilizing substance A protein (NusA), S1-like RNA-binding domain. S1-like RNA-binding domains are found in a wide variety of RNA-associated proteins. NusA is a transcription elongation factor containing an N-terminal catalytic domain and...; Region: S1_NusA; cd04455 456827000566 RNA binding site [nucleotide binding]; other site 456827000567 homodimer interface [polypeptide binding]; other site 456827000568 NusA_K homology RNA-binding domain (KH). NusA is an essential multifunctional transcription elongation factor that is universally conserved among prokaryotes and archaea. NusA anti-termination function plays an important role in the expression of...; Region: NusA_KH; cd02134 456827000569 G-X-X-G motif; other site 456827000570 DNA repair and recombination protein RadA; Validated; Region: radA; PRK04301 456827000571 Ribosomal protein L7Ae/L30e/S12e/Gadd45 family; Region: Ribosomal_L7Ae; cl00600 456827000572 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 456827000573 translation initiation factor IF-2; Region: IF-2; TIGR00487 456827000574 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 456827000575 IF2/eIF5B (initiation factors 2/ eukaryotic initiation factor 5B) subfamily. IF2/eIF5B contribute to ribosomal subunit joining and function as GTPases that are maximally activated by the presence of both ribosomal subunits. As seen in other GTPases...; Region: IF2_eIF5B; cd01887 456827000576 G1 box; other site 456827000577 putative GEF interaction site [polypeptide binding]; other site 456827000578 GTP/Mg2+ binding site [chemical binding]; other site 456827000579 Switch I region; other site 456827000580 G2 box; other site 456827000581 G3 box; other site 456827000582 Switch II region; other site 456827000583 G4 box; other site 456827000584 G5 box; other site 456827000585 This family represents the domain II of bacterial Initiation Factor 2 (IF2) and its eukaryotic mitochondrial homologue mtIF2. IF2, the largest initiation factor is an essential GTP binding protein. In E. coli three natural forms of IF2 exist in the...; Region: IF2_mtIF2_II; cd03702 456827000586 Translation-initiation factor 2; Region: IF-2; pfam11987 456827000587 mtIF2_IVc: this family represents the C2 subdomain of domain IV of mitochondrial translation initiation factor 2 (mtIF2) which adopts a beta-barrel fold displaying a high degree of structural similarity with domain II of the translation elongation...; Region: mtIF2_IVc; cd03692 456827000588 Ribosome-binding factor A; Region: RBFA; cl00542 456827000589 Exopolyphosphatase-related proteins [General function prediction only]; Region: COG0618 456827000590 DHH family; Region: DHH; pfam01368 456827000591 PseudoU_synth_EcTruB: Pseudouridine synthase, Escherichia coli TruB like. This group consists of bacterial pseudouridine synthases similar to E. coli TruB and Mycobacterium tuberculosis TruB. Pseudouridine synthases catalyze the isomerization of...; Region: PseudoU_synth_EcTruB; cd02573 456827000592 tRNA pseudouridine synthase B; Provisional; Region: truB; PRK00130 456827000593 RNA binding site [nucleotide binding]; other site 456827000594 active site 456827000595 bifunctional riboflavin kinase/FMN adenylyltransferase; Reviewed; Region: PRK05627 456827000596 FAD synthetase, N-terminal domain of the bifunctional enzyme; Region: FAD_synthetase_N; cd02064 456827000597 active site 456827000598 Riboflavin kinase; Region: Flavokinase; pfam01687 456827000599 Predicted HD-superfamily hydrolase [General function prediction only]; Region: COG3481 456827000600 YhaM_OBF_like: A subfamily of OB folds similar to that found in Bacillus subtilis YhaM and Staphylococcus aureus cmp-binding factor-1 (SaCBF1). Both these proteins are 3'-to-5'exoribonucleases. YhaM requires Mn2+ or Co2+ for activity and is inactive in...; Region: YhaM_OBF_like; cd04492 456827000601 generic binding surface I; other site 456827000602 generic binding surface II; other site 456827000603 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 456827000604 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 456827000605 primosome assembly protein PriA; Validated; Region: PRK05580 456827000606 primosome assembly protein PriA; Validated; Region: PRK05580 456827000607 DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region; Region: DEXDc; cd00046 456827000608 ATP binding site [chemical binding]; other site 456827000609 putative Mg++ binding site [ion binding]; other site 456827000610 DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region; Region: DEXDc; cl14882 456827000611 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy)...; Region: AdoMet_MTases; cl12011 456827000612 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 456827000613 ParA and ParB of Caulobacter crescentus belong to a conserved family of bacterial proteins implicated in chromosome segregation. ParB binds to DNA sequences adjacent to the origin of replication and localizes to opposite cell poles shortly following...; Region: ParA; cd02042 456827000614 P-loop; other site 456827000615 Magnesium ion binding site [ion binding]; other site 456827000616 ParA and ParB of Caulobacter crescentus belong to a conserved family of bacterial proteins implicated in chromosome segregation. ParB binds to DNA sequences adjacent to the origin of replication and localizes to opposite cell poles shortly following...; Region: ParA; cd02042 456827000617 Magnesium ion binding site [ion binding]; other site 456827000618 ParB-like partition proteins; Region: parB_part; TIGR00180 456827000619 ParB-like nuclease domain; Region: ParBc; cl02129 456827000620 KorB domain; Region: KorB; pfam08535 456827000621 dTDP-D-glucose 4,6-dehydratase [Cell envelope biogenesis, outer membrane]; Region: RfbB; COG1088 456827000622 dTDP-D-glucose 4,6-dehydratase, extended (e) SDRs; Region: dTDP_GD_SDR_e; cd05246 456827000623 NAD binding site [chemical binding]; other site 456827000624 substrate binding site [chemical binding]; other site 456827000625 homodimer interface [polypeptide binding]; other site 456827000626 active site 456827000627 M20 Peptidase T like enzymes specifically cleave tripeptides; Region: M20_peptT_like; cd05683 456827000628 peptidase T-like protein; Region: PepT-like; TIGR01883 456827000629 metal binding site [ion binding]; metal-binding site 456827000630 putative dimer interface [polypeptide binding]; other site 456827000631 dihydrodipicolinate reductase; Provisional; Region: PRK00048 456827000632 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 456827000633 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 456827000634 diaminopimelate epimerase; Provisional; Region: dapF; PRK00450 456827000635 Diaminopimelate epimerase; Region: DAP_epimerase; cl14668 456827000636 Diaminopimelate epimerase; Region: DAP_epimerase; cl14668 456827000637 Predicted transcriptional regulator contains Xre-like HTH domain [Function unknown]; Region: COG1426 456827000638 Pyridoxal kinase plays a key role in the synthesis of the active coenzyme pyridoxal-5'-phosphate (PLP), by catalyzing the phosphorylation of the precursor vitamin B6 in the presence of Zn2+ and ATP. Mammals are unable to synthesize PLP de novo and...; Region: pyridoxal_pyridoxamine_kinase; cd01173 456827000639 dimer interface [polypeptide binding]; other site 456827000640 pyridoxal binding site [chemical binding]; other site 456827000641 ATP binding site [chemical binding]; other site 456827000642 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 456827000643 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 456827000644 active site 456827000645 metal binding site [ion binding]; metal-binding site 456827000646 Uracil DNA glycosylase superfamily; Region: UDG; cl00483 456827000647 Guanosine monophosphate kinase (GMPK, EC 2.7.4.8), also known as guanylate kinase (GKase), catalyzes the reversible phosphoryl transfer from adenosine triphosphate (ATP) to guanosine monophosphate (GMP) to yield adenosine diphosphate (ADP) and...; Region: GMPK; cd00071 456827000648 catalytic site [active] 456827000649 G-X2-G-X-G-K; other site 456827000650 Glycine cleavage H-protein. Glycine cleavage H-proteins are part of the glycine cleavage system (GCS) found in bacteria, archea and the mitochondria of eukaryotes. GCS is a multienzyme complex consisting of 4 different components (P-, H-, T- and L-...; Region: GCS_H; cd06848 456827000651 lipoyl attachment site [posttranslational modification]; other site 456827000652 Ribosomal L27 protein; Region: Ribosomal_L27; cl00359 456827000653 Ribosomal prokaryotic L21 protein; Region: Ribosomal_L21p; cl00382 456827000654 Methylmalonyl-CoA epimerase (MMCE); Region: MMCE; cd07249 456827000655 dimer interface [polypeptide binding]; other site 456827000656 substrate binding site [chemical binding]; other site 456827000657 metal binding site [ion binding]; metal-binding site 456827000658 Pyruvate ferredoxin/flavodoxin oxidoreductase; Region: POR; cl00546 456827000659 2-oxoglutarate ferredoxin oxidoreductase subunit beta; Validated; Region: PRK05778 456827000660 Thiamine pyrophosphate (TPP family), 2-oxoglutarate ferredoxin oxidoreductase (OGFOR) subfamily, TPP-binding module; OGFOR catalyzes the oxidative decarboxylation of 2-oxo-acids, with ferredoxin acting as an electron acceptor. In the TCA cycle, OGFOR...; Region: TPP_OGFOR; cd03375 456827000661 TPP-binding site [chemical binding]; other site 456827000662 2-oxoglutarate ferredoxin oxidoreductase subunit alpha; Validated; Region: PRK08659 456827000663 Pyrimidine (PYR) binding domain of pyruvate ferredoxin oxidoreductase (PFOR), indolepyruvate ferredoxin oxidoreductase alpha subunit (IOR-alpha), and related proteins; Region: TPP_PYR_PFOR_IOR-alpha_like; cd07034 456827000664 dimer interface [polypeptide binding]; other site 456827000665 PYR/PP interface [polypeptide binding]; other site 456827000666 TPP binding site [chemical binding]; other site 456827000667 substrate binding site [chemical binding]; other site 456827000668 hypothetical protein; Provisional; Region: PRK13795 456827000669 aspartate aminotransferase; Provisional; Region: PRK08361 456827000670 Aspartate aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). Pyridoxal phosphate combines with an alpha-amino acid to form a compound called a Schiff base or aldimine...; Region: AAT_like; cd00609 456827000671 pyridoxal 5'-phosphate binding site [chemical binding]; other site 456827000672 homodimer interface [polypeptide binding]; other site 456827000673 catalytic residue [active] 456827000674 periplasmic folding chaperone; Provisional; Region: PRK10788 456827000675 HIT family: HIT (Histidine triad) proteins, named for a motif related to the sequence HxHxH/Qxx (x, a hydrophobic amino acid), are a superfamily of nucleotide hydrolases and transferases, which act on the alpha-phosphate of ribonucleotides. On the...; Region: HIT_like; cl00228 456827000676 nucleotide binding site/active site [active] 456827000677 HIT family signature motif; other site 456827000678 catalytic residue [active] 456827000679 Peptidase domain in the S8 and S53 families; Region: Peptidases_S8_S53; cl10459 456827000680 active site 456827000681 catalytic residues [active] 456827000682 MjaII restriction endonuclease; Region: RE_MjaII; pfam09520 456827000683 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy)...; Region: AdoMet_MTases; cl12011 456827000684 Predicted Zn-dependent proteases and their inactivated homologs [General function prediction only]; Region: TldD; cl00398 456827000685 Putative modulator of DNA gyrase; Region: PmbA_TldD; pfam01523 456827000686 Predicted Zn-dependent proteases and their inactivated homologs [General function prediction only]; Region: TldD; cl00398 456827000687 Putative modulator of DNA gyrase; Region: PmbA_TldD; pfam01523 456827000688 Caspase, interleukin-1 beta converting enzyme (ICE) homologues; Cysteine-dependent aspartate-directed proteases that mediate programmed cell death (apoptosis). Caspases are synthesized as inactive zymogens and activated by proteolysis of the peptide...; Region: CASc; cl00042 456827000689 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; cl00556 456827000690 Transglutaminase-like superfamily; Region: Transglut_core; cl10469 456827000691 N-formylglutamate amidohydrolase; Region: FGase; cl01522 456827000692 glycyl-tRNA synthetase, tetrameric type, alpha subunit; Region: glyQ; TIGR00388 456827000693 Class II Glycyl-tRNA synthetase (GlyRS) alpha subunit core catalytic domain. GlyRS functions as a homodimer in eukaryotes, archaea and some bacteria and as a heterotetramer in the remainder of prokaryotes and in arabidopsis. It is responsible for the...; Region: GlyRS_alpha_core; cd00733 456827000694 dimer interface [polypeptide binding]; other site 456827000695 motif 1; other site 456827000696 active site 456827000697 motif 2; other site 456827000698 motif 3; other site 456827000699 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 456827000700 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 456827000701 DNA binding residues [nucleotide binding] 456827000702 apolipoprotein N-acyltransferase; Reviewed; Region: lnt; PRK00302 456827000703 Apolipoprotein N-acyl transferase (class 9 nitrilases); Region: ALP_N-acyl_transferase; cd07571 456827000704 putative active site [active] 456827000705 catalytic triad [active] 456827000706 putative dimer interface [polypeptide binding]; other site 456827000707 single-stranded-DNA-specific exonuclease RecJ; Region: recJ; TIGR00644 456827000708 DHH family; Region: DHH; pfam01368 456827000709 DHHA1 domain; Region: DHHA1; pfam02272 456827000710 PTS_IIA, PTS system, fructose/mannitol specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This...; Region: PTS_IIA_fru; cd00211 456827000711 active site 456827000712 phosphorylation site [posttranslational modification] 456827000713 FOG: CBS domain [General function prediction only]; Region: COG0517 456827000714 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-...; Region: CBS_pair; cl10010 456827000715 Permease P (pink-eyed dilution). Mutations in the human melanosomal P gene were responsible for classic phenotype of oculocutaneous albinism type 2 (OCA2). Although the precise function of the P protein is unknown, it was predicted to regulate the...; Region: P_permease; cd01116 456827000716 transmembrane helices; other site 456827000717 pyruvate:ferredoxin (flavodoxin) oxidoreductase, homodimeric; Region: pyruv_ox_red; TIGR02176 456827000718 Pyrimidine (PYR) binding domain of pyruvate ferredoxin oxidoreductase (PFOR), indolepyruvate ferredoxin oxidoreductase alpha subunit (IOR-alpha), and related proteins; Region: TPP_PYR_PFOR_IOR-alpha_like; cd07034 456827000719 dimer interface [polypeptide binding]; other site 456827000720 PYR/PP interface [polypeptide binding]; other site 456827000721 TPP binding site [chemical binding]; other site 456827000722 substrate binding site [chemical binding]; other site 456827000723 Pyruvate ferredoxin/flavodoxin oxidoreductase; Region: POR; cl00546 456827000724 Domain of unknown function; Region: EKR; pfam10371 456827000725 4Fe-4S binding domain; Region: Fer4; cl02805 456827000726 The HCP family of iron-sulfur proteins includes hybrid cluster protein (HCP), acetyl-CoA synthase (ACS), and carbon monoxide dehydrogenase (CODH), all of which contain [Fe4-S4] metal clusters at their active sites. These proteins have a conserved alpha-; Region: HCP_like; cl14655 456827000727 TPP-binding module; composed of proteins similar to the single subunit pyruvate ferredoxin oxidoreductase (PFOR) of Desulfovibrio Africanus, present in bacteria and amitochondriate eukaryotes. This subfamily also includes proteins characterized as...; Region: TPP_PFOR_PNO; cd03377 456827000728 TPP-binding site [chemical binding]; other site 456827000729 dimer interface [polypeptide binding]; other site 456827000730 Exonuclease VII small subunit; Region: Exonuc_VII_S; cl00750 456827000731 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 456827000732 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 456827000733 substrate binding pocket [chemical binding]; other site 456827000734 chain length determination region; other site 456827000735 substrate-Mg2+ binding site; other site 456827000736 catalytic residues [active] 456827000737 aspartate-rich region 1; other site 456827000738 active site lid residues [active] 456827000739 aspartate-rich region 2; other site 456827000740 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 456827000741 trimer interface [polypeptide binding]; other site 456827000742 active site 456827000743 Quinolinate synthetase A protein; Region: NadA; cl00420 456827000744 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 456827000745 Cytochrome c biogenesis factor [Posttranslational modification, protein turnover, chaperones]; Region: COG4235 456827000746 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi...; Region: TPR; cd00189 456827000747 TPR motif; other site 456827000748 binding surface 456827000749 ATP-dependent chaperone ClpB; Region: chaperone_ClpB; TIGR03346 456827000750 Clp amino terminal domain; Region: Clp_N; pfam02861 456827000751 Clp amino terminal domain; Region: Clp_N; pfam02861 456827000752 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes...; Region: AAA; cd00009 456827000753 Walker A motif; other site 456827000754 ATP binding site [chemical binding]; other site 456827000755 Walker B motif; other site 456827000756 arginine finger; other site 456827000757 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes...; Region: AAA; cd00009 456827000758 Walker A motif; other site 456827000759 ATP binding site [chemical binding]; other site 456827000760 Walker B motif; other site 456827000761 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 456827000762 histidyl-tRNA synthetase; Region: hisS; TIGR00442 456827000763 Class II Histidinyl-tRNA synthetase (HisRS)-like catalytic core domain. HisRS is a homodimer. It is responsible for the attachment of histidine to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for ATP-dependent...; Region: HisRS-like_core; cd00773 456827000764 dimer interface [polypeptide binding]; other site 456827000765 motif 1; other site 456827000766 active site 456827000767 motif 2; other site 456827000768 motif 3; other site 456827000769 HGTP anticodon binding domain, as found at the C-terminus of histidyl, glycyl, threonyl and prolyl tRNA synthetases, which are classified as a group of class II aminoacyl-tRNA synthetases (aaRS). In aaRSs, the anticodon binding domain is responsible...; Region: HGTP_anticodon; cl00266 456827000770 anticodon binding site; other site 456827000771 TaqI restriction endonuclease; Region: RE_TaqI; pfam09573 456827000772 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy)...; Region: AdoMet_MTases; cl12011 456827000773 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy)...; Region: AdoMet_MTases; cl12011 456827000774 TaqI-like C-terminal specificity domain; Region: TaqI_C; pfam12950 456827000775 YjgF, YER057c, and UK114 belong to a large family of proteins present in bacteria, archaea, and eukaryotes with no definitive function. The conserved domain is similar in structure to chorismate mutase but there is no sequence similarity and no...; Region: YjgF_YER057c_UK114_family; cd00448 456827000776 homotrimer interaction site [polypeptide binding]; other site 456827000777 putative active site [active] 456827000778 Cobalamin adenosyltransferase; Region: Cob_adeno_trans; cl00920 456827000779 Histidine phosphatase domain found in phosphoglycerate mutases and related proteins, mostly phosphatases; contains a His residue which is phosphorylated during the reaction; Region: HP_PGM_like; cd07067 456827000780 catalytic core [active] 456827000781 AIR carboxylase; Region: AIRC; cl00310 456827000782 PTS_IIA, PTS system, fructose/mannitol specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This...; Region: PTS_IIA_fru; cd00211 456827000783 active site 456827000784 phosphorylation site [posttranslational modification] 456827000785 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 456827000786 S4/Hsp/ tRNA synthetase RNA-binding domain; The domain surface is populated by conserved, charged residues that define a likely RNA-binding site; Found in stress proteins, ribosomal proteins and tRNA synthetases; This may imply a hitherto unrecognized...; Region: S4; cd00165 456827000787 RNA binding surface [nucleotide binding]; other site 456827000788 PseudoU_synth_RsuA: Pseudouridine synthase, Escherichia coli RsuA like. This group is comprised of eukaryotic and bacterial proteins similar to Escherichia coli RsuA. Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA...; Region: PseudoU_synth_RsuA; cd02553 456827000789 active site 456827000790 uracil binding [chemical binding]; other site 456827000791 GTP-binding protein YchF; Reviewed; Region: PRK09601 456827000792 Ras-like GTPase superfamily. The Ras-like superfamily of small GTPases consists of several families with an extremely high degree of structural and functional similarity. The Ras superfamily is divided into at least four families in eukaryotes: the Ras...; Region: Ras_like_GTPase; cl10444 456827000793 G1 box; other site 456827000794 GTP/Mg2+ binding site [chemical binding]; other site 456827000795 G2 box; other site 456827000796 Switch I region; other site 456827000797 G3 box; other site 456827000798 Switch II region; other site 456827000799 G4 box; other site 456827000800 G5 box; other site 456827000801 TGS_YchF_C: This subfamily represents TGS domain-containing YchF GTP-binding protein, a universally conserved GTPase whose function is unknown. The N-terminal domain of the YchF protein belongs to the Obg-like family of GTPases, and some members of the...; Region: TGS_YchF_C; cd04867 456827000802 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 456827000803 Ftsk gamma domain; Region: Ftsk_gamma; cl09645 456827000804 Outer membrane lipoprotein carrier protein LolA; Region: LolA; cl01065 456827000805 Mannose-1-phosphate guanylyltransferase [Cell envelope biogenesis, outer membrane]; Region: {ManC}; COG0836 456827000806 GDP-M1P_Guanylyltransferase catalyzes the formation of GDP-Mannose; Region: GDP-M1P_Guanylyltransferase; cd02509 456827000807 Substrate binding site [chemical binding]; other site 456827000808 Cupin domain; Region: Cupin_2; cl09118 456827000809 This family is the oxydase domain of NRPS (non-ribosomal peptide synthetase) and other proteins that modify polypeptides by cyclizing a thioester to form a ring. These include epoB, part of the epothilone biosynthesis pathway; tubD, part of the...; Region: mcbC-like_oxidoreductase; cd02142 456827000810 putative FMN binding site [chemical binding]; other site 456827000811 NADPH bind site [chemical binding]; other site 456827000812 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy)...; Region: AdoMet_MTases; cl12011 456827000813 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy)...; Region: AdoMet_MTases; cl12011 456827000814 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 456827000815 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 456827000816 Walker A/P-loop; other site 456827000817 ATP binding site [chemical binding]; other site 456827000818 Q-loop/lid; other site 456827000819 ABC transporter signature motif; other site 456827000820 Walker B; other site 456827000821 D-loop; other site 456827000822 H-loop/switch region; other site 456827000823 Uncharacterised protein family (UPF0014); Region: UPF0014; cl00424 456827000824 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 456827000825 PDZ domain of C-terminal processing-, tail-specific-, and tricorn proteases, which function in posttranslational protein processing, maturation, and disassembly or degradation, in Bacteria, Archaea, and plant chloroplasts. May be responsible for...; Region: PDZ_CTP_protease; cd00988 456827000826 protein binding site [polypeptide binding]; other site 456827000827 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 456827000828 Catalytic dyad [active] 456827000829 thymidylate kinase; Validated; Region: tmk; PRK00698 456827000830 Thymidine monophosphate kinase (TMPK), also known as thymidylate kinase, catalyzes the phosphorylation of thymidine monophosphate (TMP) to thymidine diphosphate (TDP) utilizing ATP as its preferred phophoryl donor. TMPK represents the rate-limiting...; Region: TMPK; cd01672 456827000831 TMP-binding site; other site 456827000832 ATP-binding site [chemical binding]; other site 456827000833 L-aspartate oxidase; Provisional; Region: PRK09077 456827000834 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; cl14644 456827000835 domain; Region: Succ_DH_flav_C; pfam02910 456827000836 ribosomal-protein-alanine acetyltransferase; Region: rimI; TIGR01575 456827000837 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 456827000838 Coenzyme A binding pocket [chemical binding]; other site 456827000839 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 456827000840 arginyl-tRNA synthetase; Reviewed; Region: argS; PRK01611 456827000841 Arginyl tRNA synthetase N terminal domain; Region: Arg_tRNA_synt_N; pfam03485 456827000842 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 456827000843 active site 456827000844 HIGH motif; other site 456827000845 KMSK motif region; other site 456827000846 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 456827000847 tRNA binding surface [nucleotide binding]; other site 456827000848 anticodon binding site; other site 456827000849 Domain of unknown function DUF143; Region: DUF143; cl00519 456827000850 FHIT (fragile histidine family): FHIT proteins, related to the HIT family carry a motif HxHxH/Qxx (x, is a hydrophobic amino acid), On the basis of sequence, substrate specificity, structure, evolution and mechanism, HIT proteins are classified into...; Region: FHIT; cd01275 456827000851 nucleotide binding site/active site [active] 456827000852 HIT family signature motif; other site 456827000853 catalytic residue [active] 456827000854 Nucleoside-diphosphate-sugar pyrophosphorylase involved in lipopolysaccharide biosynthesis/translation initiation factor 2B, gamma/epsilon subunits (eIF-2Bgamma/eIF-2Bepsilon) [Cell envelope biogenesis, outer membrane / Translation, ribosomal structure...; Region: GCD1; COG1208 456827000855 N-terminal domain of bacterial GlmU; Region: GT2_GlmU_N_bac; cd02540 456827000856 Substrate binding site [chemical binding]; other site 456827000857 Mg++ binding site [ion binding]; other site 456827000858 Left-handed parallel beta-Helix (LbetaH or LbH) domain: The alignment contains 5 turns, each containing three imperfect tandem repeats of a hexapeptide repeat motif (X-[STAV]-X-[LIV]-[GAED]-X). Proteins containing hexapeptide repeats are often enzymes...; Region: LbetaH; cl00160 456827000859 7,8-dihydro-6-hydroxymethylpterin-pyrophosphokinase (HPPK). Folate derivatives are essential cofactors in the biosynthesis of purines, pyrimidines, and amino acids as well as formyl-tRNA. Mammalian cells are able to utilize pre-formed folates after...; Region: HPPK; cd00483 456827000860 catalytic center binding site [active] 456827000861 ATP binding site [chemical binding]; other site 456827000862 Dihydroneopterin aldolase (DHNA) and 7,8-dihydroneopterin triphosphate epimerase domain (DHNTPE); these enzymes have been designated folB and folX, respectively. Folate derivatives are essential cofactors in the biosynthesis of purines, pyrimidines...; Region: DHNA_DHNTPE; cd00534 456827000863 homooctamer interface [polypeptide binding]; other site 456827000864 active site 456827000865 Positive regulator of sigma(E), RseC/MucC; Region: RseC_MucC; cl01178 456827000866 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 456827000867 active site 456827000868 nucleotide binding site [chemical binding]; other site 456827000869 HIGH motif; other site 456827000870 KMSKS motif; other site 456827000871 RfaE encodes a bifunctional ADP-heptose synthase involved in the biosynthesis of the lipopolysaccharide (LPS) core precursor ADP-L-glycero-D-manno-heptose. LPS plays an important role in maintaining the structural integrity of the bacterial outer...; Region: RfaE_like; cd01172 456827000872 putative ribose interaction site [chemical binding]; other site 456827000873 putative ADP binding site [chemical binding]; other site 456827000874 amidophosphoribosyltransferase; Region: purF; TIGR01134 456827000875 Glutamine amidotransferases class-II (GN-AT)_GPAT- type. This domain is found at the N-terminus of glutamine phosphoribosylpyrophosphate (Prpp) amidotransferase (GPATase) . The glutaminase domain catalyzes amide nitrogen transfer from glutamine to the...; Region: GPATase_N; cd00715 456827000876 active site 456827000877 tetramer interface [polypeptide binding]; other site 456827000878 Phosphoribosyl transferase domain; Region: Pribosyltran; cl00309 456827000879 Domain of unknown function (DUF205); Region: DUF205; cl00410 456827000880 GTP-binding protein Der; Reviewed; Region: PRK00093 456827000881 EngA1 subfamily. This CD represents the first GTPase domain of EngA and its orthologs, which are composed of two adjacent GTPase domains. Since the sequences of the two domains are more similar to each other than to other GTPases, it is likely that...; Region: EngA1; cd01894 456827000882 G1 box; other site 456827000883 GTP/Mg2+ binding site [chemical binding]; other site 456827000884 Switch I region; other site 456827000885 G2 box; other site 456827000886 Switch II region; other site 456827000887 G3 box; other site 456827000888 G4 box; other site 456827000889 G5 box; other site 456827000890 EngA2 subfamily. This CD represents the second GTPase domain of EngA and its orthologs, which are composed of two adjacent GTPase domains. Since the sequences of the two domains are more similar to each other than to other GTPases, it is likely that...; Region: EngA2; cd01895 456827000891 G1 box; other site 456827000892 GTP/Mg2+ binding site [chemical binding]; other site 456827000893 Switch I region; other site 456827000894 G2 box; other site 456827000895 G3 box; other site 456827000896 Switch II region; other site 456827000897 G4 box; other site 456827000898 G5 box; other site 456827000899 S23 ribosomal protein; Region: Ribosomal_S23p; cl05287 456827000900 Integrase core domain; Region: rve; cl01316 456827000901 This is a family of oligosaccharide phosphorylases. It includes yeast and mammalian glycogen phosphorylases, plant starch/glucan phosphorylase, as well as the maltodextrin phosphorylases of bacteria. The members of this family catalyze the breakdown of...; Region: GT1_Glycogen_Phosphorylase; cd04300 456827000902 homodimer interface [polypeptide binding]; other site 456827000903 glycogen/starch/alpha-glucan phosphorylases; Region: P_ylase; TIGR02093 456827000904 active site pocket [active] 456827000905 Chromate transporter; Region: Chromate_transp; pfam02417 456827000906 Chromate transporter; Region: Chromate_transp; pfam02417 456827000907 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Reviewed; Region: ispG; PRK00366 456827000908 1-hydroxy-2-methyl-2-(E)-butenyl 4-diphosphate synthase; Region: ispG_gcpE; TIGR00612 456827000909 NIF3 (NGG1p interacting factor 3); Region: NIF3; cl01309 456827000910 NIF3 (NGG1p interacting factor 3); Region: NIF3; cl01309 456827000911 NIF3 (NGG1p interacting factor 3); Region: NIF3; cl01309 456827000912 Radical SAM superfamily. Enzymes of this family generate radicals by combining a 4Fe-4S cluster and S-adenosylmethionine (SAM) in close proximity. They are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster...; Region: Radical_SAM; cd01335 456827000913 FeS/SAM binding site; other site 456827000914 radical SAM additional 4Fe4S-binding domain; Region: rSAM_more_4Fe4S; TIGR04085 456827000915 DNA-damage-inducible protein D; Provisional; Region: dinD; PRK11525 456827000916 Competence protein; Region: Competence; cl00471 456827000917 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 456827000918 Mismatch repair ATPase (MutS family) [DNA replication, recombination, and repair]; Region: MutS; COG0249 456827000919 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 456827000920 Walker A/P-loop; other site 456827000921 ATP binding site [chemical binding]; other site 456827000922 Q-loop/lid; other site 456827000923 ABC transporter signature motif; other site 456827000924 Walker B; other site 456827000925 D-loop; other site 456827000926 H-loop/switch region; other site 456827000927 Uncharacterized conserved protein [Function unknown]; Region: COG2966 456827000928 Protein of unknown function (DUF1212); Region: DUF1212; cl01118 456827000929 Protein of unknown function (DUF1212); Region: DUF1212; cl01118 456827000930 Protein of unknown function (DUF1212); Region: DUF1212; cl01118 456827000931 HD supefamily hydrolase [General function prediction only]; Region: COG3294 456827000932 Acetokinase family; Region: Acetate_kinase; cl01029 456827000933 Clostripain family; Region: Peptidase_C11; cl04055 456827000934 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 456827000935 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; pfam08032 456827000936 SpoU rRNA Methylase family; Region: SpoU_methylase; cl00362 456827000937 Thymidine kinase; Region: TK; cl00631 456827000938 YGGT family; Region: YGGT; cl00508 456827000939 DivIVA domain; Region: DivI1A_domain; TIGR03544 456827000940 DivIVA protein; Region: DivIVA; pfam05103 456827000941 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 456827000942 Prokaryotic dksA/traR C4-type zinc finger; Region: zf-dskA_traR; cl00755 456827000943 lipoprotein signal peptidase; Provisional; Region: PRK14787 456827000944 Signal peptidase (SPase) II; Region: Peptidase_A8; cl00458 456827000945 YhcR_OBF_like: A subfamily of OB-fold domains similar to the OB folds of Bacillus subtilis YhcR. YhcR is a sugar-nonspecific nuclease, which is active in the presence of Ca2+ and Mn2+. It cleaves RNA endonucleolytically, producing 3'-monophosphate...; Region: YhcR_OBF_like; cd04486 456827000946 generic binding surface II; other site 456827000947 generic binding surface I; other site 456827000948 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 456827000949 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 456827000950 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 456827000951 Walker A/P-loop; other site 456827000952 ATP binding site [chemical binding]; other site 456827000953 Q-loop/lid; other site 456827000954 ABC transporter signature motif; other site 456827000955 Walker B; other site 456827000956 D-loop; other site 456827000957 H-loop/switch region; other site 456827000958 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cl11394 456827000959 active site 456827000960 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 456827000961 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cl11394 456827000962 active site 456827000963 This family is most closely related to the GT1 family of glycosyltransferases and named after YqgM in Bacillus licheniformis about which little is known. Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to...; Region: GT1_YqgM_like; cd03801 456827000964 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 456827000965 UDP-glucose LOS-beta-1,4 glucosyltransferase is required for biosynthesis of lipooligosaccharide; Region: Beta4Glucosyltransferase; cd02511 456827000966 putative metal binding site [ion binding]; other site 456827000967 This family is most closely related to the GT1 family of glycosyltransferases and named after YqgM in Bacillus licheniformis about which little is known. Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to...; Region: GT1_YqgM_like; cd03801 456827000968 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 456827000969 Lipopolysaccharide heptosyltransferase is involved in the biosynthesis of lipooligosaccharide (LOS). Lipopolysaccharide (LPS) is a major component of the outer membrane of gram-negative bacteria. LPS heptosyltransferase transfers heptose molecules from...; Region: GT1_LPS_heptosyltransferase; cd03789 456827000970 putative active site [active] 456827000971 Superfamily of metallo-dependent hydrolases (also called amidohydrolase superfamily) is a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the members have...; Region: metallo-dependent_hydrolases; cl00281 456827000972 active site 456827000973 Dinucleotide-utilizing enzymes involved in molybdopterin and thiamine biosynthesis family 1 [Coenzyme metabolism]; Region: COG1179 456827000974 Family of activating enzymes (E1) of ubiquitin-like proteins related to the E.coli hypothetical protein ygdL. The common reaction mechanism catalyzed by E1-like enzymes begins with a nucleophilic attack of the C-terminal carboxylate of the ubiquitin-...; Region: YgdL_like; cd00755 456827000975 putative ATP binding site [chemical binding]; other site 456827000976 putative substrate interface [chemical binding]; other site 456827000977 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cl11394 456827000978 active site 456827000979 Putative glycosyl/glycerophosphate transferases involved in teichoic acid biosynthesis TagF/TagB/EpsJ/RodC [Cell envelope biogenesis, outer membrane]; Region: TagB; COG1887 456827000980 CDP-Glycerol:Poly(glycerophosphate) glycerophosphotransferase; Region: Glyphos_transf; pfam04464 456827000981 Myo-inositol-1-phosphate synthase; Region: Inos-1-P_synth; cl00554 456827000982 Myo-inositol-1-phosphate synthase; Region: NAD_binding_5; pfam07994 456827000983 Imidazolonepropionase and related amidohydrolases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: HutI; COG1228 456827000984 Imidazolonepropionase/imidazolone-5-propionate hydrolase (Imidazolone-5PH) catalyzes the third step in the histidine degradation pathway, the hydrolysis of (S)-3-(5-oxo-4,5-dihydro-3H-imidazol-4-yl)propanoate to N-formimidoyl-L-glutamate. In bacteria...; Region: Imidazolone-5PH; cd01296 456827000985 active site 456827000986 Protein kinase domain; Region: Pkinase; pfam00069 456827000987 Catalytic domain of Protein Kinases; Region: PKc; cd00180 456827000988 active site 456827000989 ATP binding site [chemical binding]; other site 456827000990 substrate binding site [chemical binding]; other site 456827000991 activation loop (A-loop); other site 456827000992 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; cl00556 456827000993 prolyl-tRNA synthetase; Provisional; Region: PRK08661 456827000994 Prolyl-tRNA synthetase (ProRS) class II core catalytic domain. ProRS is a homodimer. It is responsible for the attachment of proline to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for ATP-dependent formation...; Region: ProRS_core_arch_euk; cd00778 456827000995 dimer interface [polypeptide binding]; other site 456827000996 motif 1; other site 456827000997 active site 456827000998 motif 2; other site 456827000999 motif 3; other site 456827001000 ProRS Prolyl-anticodon binding domain, long version found predominantly in eukaryotes and archaea. ProRS belongs to class II aminoacyl-tRNA synthetases (aaRS). This alignment contains the anticodon binding domain, which is responsible for specificity...; Region: ProRS_anticodon_zinc; cd00862 456827001001 anticodon binding site; other site 456827001002 zinc-binding site [ion binding]; other site 456827001003 competence damage-inducible protein A; Provisional; Region: PRK00549 456827001004 Competence-damaged protein. CinA is the first gene in the competence- inducible (cin) operon and is thought to be specifically required at some stage in the process of transformation. This domain is closely related to a domain, found in a variety of...; Region: cinA; cd00885 456827001005 putative MPT binding site; other site 456827001006 Competence-damaged protein; Region: CinA; cl00666 456827001007 phosphoribosylamine--glycine ligase; Provisional; Region: PRK00885 456827001008 Phosphoribosylglycinamide synthetase, N domain; Region: GARS_N; pfam02844 456827001009 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; cl03087 456827001010 Phosphoribosylglycinamide synthetase, C domain; Region: GARS_C; pfam02843 456827001011 Propeptide_C25; Region: Propeptide_C25; pfam08126 456827001012 Peptidase family C25; Region: Peptidase_C25; pfam01364 456827001013 Flagellar hook capping protein; Region: FlgD; cl04347 456827001014 Uncharacterised protein family (UPF0164); Region: UPF0164; pfam03687 456827001015 putative polysaccharide export protein, PEP-CTERM sytem-associated; Region: pepcterm_export; TIGR03027 456827001016 SLBB domain; Region: SLBB; pfam10531 456827001017 Uncharacterized protein involved in exopolysaccharide biosynthesis [Cell envelope biogenesis, outer membrane]; Region: GumC; COG3206 456827001018 Chain length determinant protein; Region: Wzz; cl01623 456827001019 Chain length determinant protein; Region: Wzz; cl01623 456827001020 capsular exopolysaccharide family; Region: eps_fam; TIGR01007 456827001021 Ras-like GTPase superfamily. The Ras-like superfamily of small GTPases consists of several families with an extremely high degree of structural and functional similarity. The Ras superfamily is divided into at least four families in eukaryotes: the Ras...; Region: Ras_like_GTPase; cl10444 456827001022 4-diphosphocytidyl-2-C-methyl-D-erythritol kinase; Provisional; Region: ipk; PRK00128 456827001023 GHMP kinases N terminal domain; Region: GHMP_kinases_N; cl08256 456827001024 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 456827001025 Superfamily of metallo-dependent hydrolases (also called amidohydrolase superfamily) is a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the members have...; Region: metallo-dependent_hydrolases; cl00281 456827001026 Cytosine deaminase and related metal-dependent hydrolases [Nucleotide transport and metabolism / General function prediction only]; Region: SsnA; COG0402 456827001027 active site 456827001028 ASPIC and UnbV; Region: UnbV_ASPIC; pfam07593 456827001029 Hsp33-like chaperonin; Reviewed; Region: hslO; PRK00114 456827001030 Heat shock protein 33 (Hsp33): Cytosolic protein that acts as a molecular chaperone under oxidative conditions. In normal (reducing) cytosolic conditions, four conserved Cys residues are coordinated by a Zn ion. Under oxidative stress (such as heat...; Region: Hsp33; cd00498 456827001031 dimerization interface [polypeptide binding]; other site 456827001032 domain crossover interface; other site 456827001033 redox-dependent activation switch; other site 456827001034 SpoIID/LytB domain; Region: SpoIID_LytB; TIGR02669 456827001035 Stage II sporulation protein; Region: SpoIID; cl07201 456827001036 methionyl-tRNA synthetase; Reviewed; Region: metG; PRK00133 456827001037 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 456827001038 active site 456827001039 HIGH motif; other site 456827001040 KMSKS motif; other site 456827001041 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 456827001042 tRNA binding surface [nucleotide binding]; other site 456827001043 anticodon binding site; other site 456827001044 tRNA-binding-domain-containing Escherichia coli methionyl-tRNA synthetase (EcMetRS)-like proteins. This family includes EcMetRS and Aquifex aeolicus Trbp111 (AaTrbp111). This domain has general tRNA binding properties. MetRS aminoacylates methionine...; Region: tRNA_bind_EcMetRS_like; cd02800 456827001045 dimer interface [polypeptide binding]; other site 456827001046 putative tRNA-binding site [nucleotide binding]; other site 456827001047 aspartate kinase I; Reviewed; Region: PRK08210 456827001048 AAK_AK-DapG-like: Amino Acid Kinase Superfamily (AAK), AK-DapG-like; this CD includes the N-terminal catalytic aspartokinase (AK) domain of the diaminopimelate-sensitive aspartokinase isoenzyme AKI (DapG), a monofunctional enzymes found in Bacilli (...; Region: AAK_AK-DapG-like; cd04246 456827001049 putative catalytic residues [active] 456827001050 putative nucleotide binding site [chemical binding]; other site 456827001051 putative aspartate binding site [chemical binding]; other site 456827001052 Propeptide_C25; Region: Propeptide_C25; pfam08126 456827001053 Peptidase family C25; Region: Peptidase_C25; pfam01364 456827001054 Bacterial Ig-like domain (group 1); Region: Big_1; cl10510 456827001055 putative carboxyl-terminal-processing protease, deltaproteobacterial; Region: prc_long_Delta; TIGR03900 456827001056 Immune inhibitor A peptidase M6; Region: Peptidase_M6; cl11525 456827001057 Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all...; Region: FN3; cd00063 456827001058 Cytokine receptor motif; other site 456827001059 Uncharacterized conserved protein [Function unknown]; Region: COG5276 456827001060 Uncharacterized conserved protein [Function unknown]; Region: COG5276 456827001061 LVIVD repeat; Region: LVIVD; pfam08309 456827001062 hybrid cluster protein; Provisional; Region: PRK05290 456827001063 The HCP family of iron-sulfur proteins includes hybrid cluster protein (HCP), acetyl-CoA synthase (ACS), and carbon monoxide dehydrogenase (CODH), all of which contain [Fe4-S4] metal clusters at their active sites. These proteins have a conserved alpha-; Region: HCP_like; cl14655 456827001064 ACS interaction site; other site 456827001065 CODH interaction site; other site 456827001066 Hybrid cluster protein (HCP), formerly known as prismane, is thought to play a role in nitrogen metabolism but its specific function is unknown. HCP has three structural domains, an N-terminal alpha-helical domain, and two similar domains comprising a...; Region: HCP; cd01914 456827001067 hybrid metal cluster; other site 456827001068 Cupin domain; Region: Cupin_2; cl09118 456827001069 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 456827001070 YsiA-like protein, C-terminal region; Region: TetR_C_4; pfam08359 456827001071 biotin synthase; Provisional; Region: PRK07094 456827001072 Radical SAM superfamily. Enzymes of this family generate radicals by combining a 4Fe-4S cluster and S-adenosylmethionine (SAM) in close proximity. They are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster...; Region: Radical_SAM; cd01335 456827001073 FeS/SAM binding site; other site 456827001074 Biotin and Thiamin Synthesis associated domain; Region: BATS; cl06149 456827001075 Uncharacterised BCR, YbaB family COG0718; Region: DUF149; cl00494 456827001076 recombination protein RecR; Reviewed; Region: recR; PRK00076 456827001077 RecR protein; Region: RecR; pfam02132 456827001078 TOPRIM_recR: topoisomerase-primase (TOPRIM) nucleotidyl transferase/hydrolase domain of the type found in Escherichia coli RecR. RecR participates in the RecFOR pathway of homologous recombinational repair in prokaryotes. This pathway provides a...; Region: TOPRIM_recR; cd01025 456827001079 putative active site [active] 456827001080 putative metal-binding site [ion binding]; other site 456827001081 tetramer interface [polypeptide binding]; other site 456827001082 riboflavin synthase subunit alpha; Provisional; Region: PRK09289 456827001083 Lumazine binding domain; Region: Lum_binding; pfam00677 456827001084 Lumazine binding domain; Region: Lum_binding; pfam00677 456827001085 Bacterial virulence factor lipase N-terminal; Region: Lipase_bact_N; pfam12262 456827001086 Ribosomal protein S7p/S5e; Region: Ribosomal_S7; cl00313 456827001087 S12-like family, 30S ribosomal protein S12 subfamily; S12 is located at the interface of the large and small ribosomal subunits of prokaryotes, chloroplasts and mitochondria, where it plays an important role in both tRNA and ribosomal subunit...; Region: Ribosomal_S12; cd03368 456827001088 S17 interaction site [polypeptide binding]; other site 456827001089 S8 interaction site; other site 456827001090 16S rRNA interaction site [nucleotide binding]; other site 456827001091 streptomycin interaction site [chemical binding]; other site 456827001092 23S rRNA interaction site [nucleotide binding]; other site 456827001093 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 456827001094 RNA polymerase Rpb1, domain 1; Region: RNA_pol_Rpb1_1; pfam04997 456827001095 DNA-directed RNA polymerase, beta' subunit/160 kD subunit [Transcription]; Region: RpoC; COG0086 456827001096 RNA polymerase Rpb1, domain 2; Region: RNA_pol_Rpb1_2; cl11591 456827001097 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 456827001098 DNA-directed RNA polymerase, beta'' subunit; Region: rpoC2_cyan; TIGR02388 456827001099 RNA polymerase Rpb1, domain 4; Region: RNA_pol_Rpb1_4; pfam05000 456827001100 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 456827001101 Rpb1 - Rpb6 interaction site [polypeptide binding]; other site 456827001102 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 456827001103 Rpb1 - Rpb5 interaction site [polypeptide binding]; other site 456827001104 Apocytochrome F, C-terminal; Region: Apocytochr_F_C; cl03168 456827001105 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 456827001106 DNA binding site [nucleotide binding] 456827001107 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 456827001108 RNA polymerase beta subunit. RNA polymerases catalyse the DNA dependent polymerization of RNA. Prokaryotes contain a single RNA polymerase compared to three in eukaryotes (not including mitochondrial. and chloroplast polymerases). Each RNA polymerase...; Region: RNA_pol_B_RPB2; cl04593 456827001109 RNA polymerase beta subunit; Region: RNA_pol_Rpb2_1; cl04591 456827001110 RNA polymerase beta subunit. RNA polymerases catalyse the DNA dependent polymerization of RNA. Prokaryotes contain a single RNA polymerase compared to three in eukaryotes (not including mitochondrial. and chloroplast polymerases). Each RNA polymerase...; Region: RNA_pol_B_RPB2; cd00653 456827001111 RPB12 interaction site [polypeptide binding]; other site 456827001112 RNA polymerase beta subunit. RNA polymerases catalyse the DNA dependent polymerization of RNA. Prokaryotes contain a single RNA polymerase compared to three in eukaryotes (not including mitochondrial. and chloroplast polymerases). Each RNA polymerase...; Region: RNA_pol_B_RPB2; cl04593 456827001113 RPB11 interaction site [polypeptide binding]; other site 456827001114 RPB12 interaction site [polypeptide binding]; other site 456827001115 RNA polymerase beta subunit. RNA polymerases catalyse the DNA dependent polymerization of RNA. Prokaryotes contain a single RNA polymerase compared to three in eukaryotes (not including mitochondrial. and chloroplast polymerases). Each RNA polymerase...; Region: RNA_pol_B_RPB2; cd00653 456827001116 RPB12 interaction site [polypeptide binding]; other site 456827001117 RPB3 interaction site [polypeptide binding]; other site 456827001118 RPB1 interaction site [polypeptide binding]; other site 456827001119 RPB11 interaction site [polypeptide binding]; other site 456827001120 RPB10 interaction site [polypeptide binding]; other site 456827001121 Ribosomal protein L7/L12. Ribosomal protein L7/L12 refers to the large ribosomal subunit proteins L7 and L12, which are identical except that L7 is acetylated at the N terminus. It is a component of the L7/L12 stalk, which is located at the surface of...; Region: Ribosomal_L7_L12; cd00387 456827001122 peripheral dimer interface [polypeptide binding]; other site 456827001123 core dimer interface [polypeptide binding]; other site 456827001124 L10 interface [polypeptide binding]; other site 456827001125 L11 interface [polypeptide binding]; other site 456827001126 putative EF-Tu interaction site [polypeptide binding]; other site 456827001127 putative EF-G interaction site [polypeptide binding]; other site 456827001128 Ribosomal protein L10 family, L10 subfamily; composed of bacterial 50S ribosomal protein and eukaryotic mitochondrial 39S ribosomal protein, L10. L10 occupies the L7/L12 stalk of the ribosome. The N-terminal domain (NTD) of L10 interacts with L11...; Region: Ribosomal_L10; cd05797 456827001129 23S rRNA interface [nucleotide binding]; other site 456827001130 Interface with L7/L12 ribosomal proteins [polypeptide binding]; other site 456827001131 Ribosomal protein L1. The L1 protein, located near the E-site of the ribosome, forms part of the L1 stalk along with 23S rRNA. In bacteria and archaea, L1 functions both as a ribosomal protein that binds rRNA, and as a translation repressor that...; Region: Ribosomal_L1; cd00403 456827001132 mRNA/rRNA interface [nucleotide binding]; other site 456827001133 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 456827001134 Ribosomal protein L11. Ribosomal protein L11, together with proteins L10 and L7/L12, and 23S rRNA, form the L7/L12 stalk on the surface of the large subunit of the ribosome. The homologous eukaryotic cytoplasmic protein is also called 60S ribosomal...; Region: Ribosomal_L11; cd00349 456827001135 23S rRNA interface [nucleotide binding]; other site 456827001136 L7/L12 interface [polypeptide binding]; other site 456827001137 putative thiostrepton binding site; other site 456827001138 L25 interface [polypeptide binding]; other site 456827001139 transcription antitermination protein NusG; Validated; Region: nusG; PRK05609 456827001140 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 456827001141 putative homodimer interface [polypeptide binding]; other site 456827001142 SecE/Sec61-gamma subunits of protein translocation complex; Region: SecE; cl00481 456827001143 Ribosomal protein L33; Region: Ribosomal_L33; cl00383 456827001144 elongation factor Tu; Reviewed; Region: PRK00049 456827001145 EF-Tu subfamily. This subfamily includes orthologs of translation elongation factor EF-Tu in bacteria, mitochondria, and chloroplasts. It is one of several GTP-binding translation factors found in the larger family of GTP-binding elongation factors; Region: EF_Tu; cd01884 456827001146 G1 box; other site 456827001147 GEF interaction site [polypeptide binding]; other site 456827001148 GTP/Mg2+ binding site [chemical binding]; other site 456827001149 Switch I region; other site 456827001150 G2 box; other site 456827001151 G3 box; other site 456827001152 Switch II region; other site 456827001153 G4 box; other site 456827001154 G5 box; other site 456827001155 EFTU_II: Elongation factor Tu domain II. Elongation factors Tu (EF-Tu) are three-domain GTPases with an essential function in the elongation phase of mRNA translation. The GTPase center of EF-Tu is in the N-terminal domain (domain I), also known as the...; Region: EFTU_II; cd03697 456827001156 Domain III of elongation factor (EF) Tu. Ef-Tu consists of three structural domains, designated I, II and III. Domain III adopts a beta barrel structure. Domain III is involved in binding to both charged tRNA and binding to elongation factor Ts (EF-Ts)...; Region: EFTU_III; cd03707 456827001157 Antibiotic Binding Site [chemical binding]; other site 456827001158 Orthopoxvirus protein of unknown function (DUF830); Region: DUF830; cl13998 456827001159 Lumazine-binding domain; Region: Lumazine_bd; pfam12870 456827001160 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy)...; Region: AdoMet_MTases; cl12011 456827001161 DNA modification methylase [DNA replication, recombination, and repair]; Region: COG0863 456827001162 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl09100 456827001163 Peptidase S24 LexA-like proteins are involved in the SOS response leading to the repair of single-stranded DNA within the bacterial cell. This family includes: the lambda repressor CI/C2 family and related bacterial prophage repressor proteins; LexA (...; Region: S24_LexA-like; cd06529 456827001164 Catalytic site [active] 456827001165 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 456827001166 Integrase core domain; Region: rve; cl01316 456827001167 Mu transposase, C-terminal; Region: Mu-transpos_C; pfam09299 456827001168 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 456827001169 Walker A/P-loop; other site 456827001170 ATP binding site [chemical binding]; other site 456827001171 ABC transporter signature motif; other site 456827001172 Walker B; other site 456827001173 D-loop; other site 456827001174 Protein of unknown function (DUF3164); Region: DUF3164; pfam11363 456827001175 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 456827001176 Terminase-like family; Region: Terminase_6; pfam03237 456827001177 Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]; Region: UvrD; COG0210 456827001178 UvrD/REP helicase; Region: UvrD-helicase; cl14126 456827001179 Predicted ATP-dependent endonuclease of the OLD family [DNA replication, recombination, and repair]; Region: COG3593 456827001180 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 456827001181 Walker A/P-loop; other site 456827001182 ATP binding site [chemical binding]; other site 456827001183 TOPRIM_OLD: topoisomerase-primase (TOPRIM) nucleotidyl transferase/hydrolase domain of the type found in bacterial and archaeal nucleases of the OLD (overcome lysogenization defect) family. The bacteriophage P2 OLD protein, which has DNase as well as...; Region: TOPRIM_OLD; cd01026 456827001184 putative active site [active] 456827001185 putative metal-binding site [ion binding]; other site 456827001186 N-6 DNA Methylase; Region: N6_Mtase; pfam02384 456827001187 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy)...; Region: AdoMet_MTases; cl12011 456827001188 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 456827001189 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 456827001190 Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]; Region: HsdR; COG4096 456827001191 DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region; Region: DEXDc; cd00046 456827001192 ATP binding site [chemical binding]; other site 456827001193 putative Mg++ binding site [ion binding]; other site 456827001194 lysozyme_like domain. This contains several members including Soluble Lytic Transglycosylases (SLT), Goose Egg-White Lysozymes (GEWL), Hen Egg-White Lysozymes (HEWL), chitinases, bacteriophage lambda lysozymes, endolysins, autolysins, and chitosanases...; Region: lysozyme_like; cl00222 456827001195 catalytic residue [active] 456827001196 Phage-related protein [Function unknown]; Region: COG4695; cl01923 456827001197 phage portal protein, PBSX family; Region: portal_PBSX; TIGR01540 456827001198 Phage capsid family; Region: Phage_capsid; pfam05065 456827001199 D12 class N6 adenine-specific DNA methyltransferase; Region: MethyltransfD12; cl00408 456827001200 D12 class N6 adenine-specific DNA methyltransferase; Region: MethyltransfD12; cl00408 456827001201 tyrosine 2,3-aminomutase; Region: Tyr_2_3_mutase; TIGR03832 456827001202 Phenylalanine ammonia-lyase (PAL) and histidine ammonia-lyase (HAL); Region: PAL-HAL; cd00332 456827001203 active sites [active] 456827001204 tetramer interface [polypeptide binding]; other site 456827001205 tol-pal system protein YbgF; Region: tol_pal_ybgF; TIGR02795 456827001206 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi...; Region: TPR; cd00189 456827001207 binding surface 456827001208 TPR motif; other site 456827001209 tRNA pseudouridine synthase A; Validated; Region: truA; PRK00021 456827001210 PseudoU_synth_EcTruA: Pseudouridine synthase, Escherichia coli TruA like. This group consists of eukaryotic and bacterial pseudouridine synthases similar to E. coli TruA, Pseudomonas aeruginosa truA and human pseudouridine synthase-like 1 (PUSL1)...; Region: PseudoU_synth_EcTruA; cd02570 456827001211 dimerization interface 3.5A [polypeptide binding]; other site 456827001212 active site 456827001213 histidyl-tRNA synthetase; Region: hisS; TIGR00442 456827001214 Class II Histidinyl-tRNA synthetase (HisRS)-like catalytic core domain. HisRS is a homodimer. It is responsible for the attachment of histidine to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for ATP-dependent...; Region: HisRS-like_core; cd00773 456827001215 dimer interface [polypeptide binding]; other site 456827001216 motif 1; other site 456827001217 active site 456827001218 motif 2; other site 456827001219 motif 3; other site 456827001220 HisRS Histidyl-anticodon binding domain. HisRS belongs to class II aminoacyl-tRNA synthetases (aaRS). This alignment contains the anticodon binding domain, which is responsible for specificity in tRNA-binding, so that the activated amino acid is...; Region: HisRS_anticodon; cd00859 456827001221 anticodon binding site; other site 456827001222 phosphoglucosamine mutase; Region: Arch_GlmM; TIGR03990 456827001223 The phosphomannomutase/phosphoglucomutase (PMM/PGM) bifunctional enzyme catalyzes the reversible conversion of 1-phospho to 6-phospho-sugars (e.g. between mannose-1-phosphate and mannose-6-phosphate or glucose-1-phosphate and glucose-6-phosphate) via a...; Region: PMM_PGM; cd03089 456827001224 active site 456827001225 substrate binding site [chemical binding]; other site 456827001226 metal binding site [ion binding]; metal-binding site 456827001227 NTPase/HAM1. This family consists of the HAM1 protein and pyrophosphate-releasing xanthosine/ inosine triphosphatase. HAM1 protects the cell against mutagenesis by the base analog 6-N-hydroxylaminopurine (HAP) in E. Coli and S. cerevisiae. A Ham1-...; Region: HAM1; cd00515 456827001228 active site 456827001229 dimerization interface [polypeptide binding]; other site 456827001230 Protein of unknown function (DUF1232); Region: DUF1232; cl01318 456827001231 pyruvate phosphate dikinase; Provisional; Region: PRK09279 456827001232 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 456827001233 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; cl01586 456827001234 Pyruvate kinase (PK): Large allosteric enzyme that regulates glycolysis through binding of the substrate, phosphoenolpyruvate, and one or more allosteric effectors. Like other allosteric enzymes, PK has a high substrate affinity R state and a low...; Region: Pyruvate_Kinase; cl09155 456827001235 Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all...; Region: FN3; cl00065 456827001236 Putative glycoside hydrolase; Region: Glyco_hydro_44; pfam12891 456827001237 Flagellar hook capping protein; Region: FlgD; cl04347 456827001238 Helix-hairpin-helix motif; Region: HHH_3; pfam12836 456827001239 5'-nucleotidase/2',3'-cyclic phosphodiesterase and related esterases [Nucleotide transport and metabolism]; Region: UshA; COG0737 456827001240 Escherichia coli UshA-like family, N-terminal metallophosphatase domain; Region: MPP_UshA_N_like; cd00845 456827001241 active site 456827001242 metal binding site [ion binding]; metal-binding site 456827001243 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 456827001244 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 456827001245 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 456827001246 Coenzyme A binding pocket [chemical binding]; other site 456827001247 Benzoyl-CoA reductase/2-hydroxyglutaryl-CoA dehydratase subunit, BcrC/BadD/HgdB [Amino acid transport and metabolism]; Region: HgdB; COG1775 456827001248 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 456827001249 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 456827001250 Walker A/P-loop; other site 456827001251 ATP binding site [chemical binding]; other site 456827001252 Q-loop/lid; other site 456827001253 ABC transporter signature motif; other site 456827001254 Walker B; other site 456827001255 D-loop; other site 456827001256 H-loop/switch region; other site 456827001257 ABC transporter; Region: ABC_tran_2; pfam12848 456827001258 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by...; Region: ABCF_EF-3; cd03221 456827001259 Translation initiation factor IF-3, N-terminal domain; Region: IF3_N; pfam05198 456827001260 translation initiation factor IF-3; Reviewed; Region: infC; PRK00028 456827001261 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 456827001262 Ribosomal protein L35; Region: Ribosomal_L35p; cl00392 456827001263 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 456827001264 23S rRNA binding site [nucleotide binding]; other site 456827001265 L21 binding site [polypeptide binding]; other site 456827001266 L13 binding site [polypeptide binding]; other site 456827001267 phenylalanyl-tRNA synthetase subunit alpha; Validated; Region: pheS; PRK00488 456827001268 Aminoacyl tRNA synthetase class II, N-terminal domain; Region: Phe_tRNA-synt_N; pfam02912 456827001269 Phenylalanyl-tRNA synthetase (PheRS) alpha chain catalytic core domain. PheRS belongs to class II aminoacyl-tRNA synthetases (aaRS) based upon its structure and the presence of three characteristic sequence motifs. This domain is primarily responsible...; Region: PheRS_alpha_core; cd00496 456827001270 dimer interface [polypeptide binding]; other site 456827001271 motif 1; other site 456827001272 active site 456827001273 motif 2; other site 456827001274 motif 3; other site 456827001275 phenylalanyl-tRNA synthetase subunit beta; Reviewed; Region: pheT; PRK00629 456827001276 tRNA-binding-domain-containing prokaryotic phenylalanly tRNA synthetase (PheRS) beta chain. PheRS aminoacylate phenylalanine transfer RNAs (tRNAphe). PheRSs belong structurally to class II aminoacyl tRNA synthetases (aaRSs) but, as they aminoacylate...; Region: tRNA_bind_bactPheRS; cd02796 456827001277 putative tRNA-binding site [nucleotide binding]; other site 456827001278 B3/4 domain; Region: B3_4; cl11458 456827001279 Phenylalanyl-tRNA synthetase (PheRS) beta chain core domain. PheRS belongs to class II aminoacyl-tRNA synthetases (aaRS) based upon its structure. While class II aaRSs generally aminoacylate the 3'-OH ribose of the appropriate tRNA, PheRS is an...; Region: PheRS_beta_core; cd00769 456827001280 dimer interface [polypeptide binding]; other site 456827001281 motif 1; other site 456827001282 motif 3; other site 456827001283 motif 2; other site 456827001284 Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; pfam03147 456827001285 integrating conjugative element protein, PFL_4705 family; Region: conj_TIGR03752 456827001286 phosphodiesterase; Provisional; Region: PRK12704 456827001287 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 456827001288 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 456827001289 Deinococcus radiodurans DR1281 and related proteins, metallophosphatase domain; Region: MPP_DR1281; cd07382 456827001290 putative active site [active] 456827001291 metal binding site [ion binding]; metal-binding site 456827001292 homodimer binding site [polypeptide binding]; other site 456827001293 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional; Region: PRK14190 456827001294 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 456827001295 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 456827001296 homodimer interface [polypeptide binding]; other site 456827001297 NADP binding site [chemical binding]; other site 456827001298 substrate binding site [chemical binding]; other site 456827001299 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 456827001300 Predicted RNA-binding protein [General function prediction only]; Region: Jag; COG1847 456827001301 jag_K homology RNA-binding domain. The KH domain is found in proteins homologous to the Bacillus subtilis protein Jag, which is associated with SpoIIIJ and is necessary for the third stage of sporulation. The KH motif is a beta-alpha-alpha-beta-beta...; Region: jag_KH; cd02414 456827001302 G-X-X-G motif; other site 456827001303 R3H domain found in proteins homologous to Bacillus subtilus Jag, which is associated with SpoIIIJ. SpoIIIJ is necessary for the third stage of sporulation. The name of the R3H domain comes from the characteristic spacing of the most conserved arginine...; Region: R3H_jag; cd02644 456827001304 RxxxH motif; other site 456827001305 membrane protein insertase; Provisional; Region: PRK01318 456827001306 60Kd inner membrane protein; Region: 60KD_IMP; cl00489 456827001307 Domain of unknown function DUF37; Region: DUF37; cl00506 456827001308 putative RNase P, protein component, involved in tRNA and 4.5S RNA-processing (RnpA);Evidence 2a : Function of homologous gene experimentally demonstrated in an other organism; PubMedId : 9628904; Product type pe : putative enzyme 456827001309 Ribosomal protein L34; Region: Ribosomal_L34; cl00370 456827001310 Transcription-repair coupling factor (superfamily II helicase) [DNA replication, recombination, and repair / Transcription]; Region: Mfd; COG1197 456827001311 CarD-like/TRCF domain; Region: CarD_TRCF; cl00588 456827001312 DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region; Region: DEXDc; cd00046 456827001313 ATP binding site [chemical binding]; other site 456827001314 putative Mg++ binding site [ion binding]; other site 456827001315 Helicase superfamily c-terminal domain; associated with DEXDc-, DEAD-, and DEAH-box proteins, yeast initiation factor 4A, Ski2p, and Hepatitis C virus NS3 helicases; this domain is found in a wide variety of helicases and helicase related proteins; may...; Region: HELICc; cd00079 456827001316 nucleotide binding region [chemical binding]; other site 456827001317 ATP-binding site [chemical binding]; other site 456827001318 TRCF domain; Region: TRCF; pfam03461 456827001319 ATP-dependent DNA helicase PcrA; Region: pcrA; TIGR01073 456827001320 UvrD/REP helicase; Region: UvrD-helicase; cl14126 456827001321 DNA uptake lipoprotein [General function prediction only]; Region: ComL; COG4105 456827001322 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi...; Region: TPR; cl02429 456827001323 binding surface 456827001324 TPR motif; other site 456827001325 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 456827001326 UDP-N-acetylmuramyl pentapeptide phosphotransferase/UDP-N- acetylglucosamine-1-phosphate transferase [Cell envelope biogenesis, outer membrane]; Region: Rfe; COG0472 456827001327 This subfamily contains Escherichia coli WecA, Bacillus subtilis TagO and related proteins. WecA is an UDP-N-acetylglucosamine (GlcNAc):undecaprenyl-phosphate (Und-P) GlcNAc-1-phosphate transferase that catalyzes the formation of a phosphodiester bond...; Region: GT_WecA_like; cd06853 456827001328 Mg++ binding site [ion binding]; other site 456827001329 putative catalytic motif [active] 456827001330 substrate binding site [chemical binding]; other site 456827001331 Flagellar hook capping protein; Region: FlgD; cl04347 456827001332 Transposase IS200 like; Region: Y1_Tnp; cl00848 456827001333 Cleaved Adhesin Domain; Region: Cleaved_Adhesin; pfam07675 456827001334 Cleaved Adhesin Domain; Region: Cleaved_Adhesin; pfam07675 456827001335 CARDB; Region: CARDB; pfam07705 456827001336 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 456827001337 active site 456827001338 ATP binding site [chemical binding]; other site 456827001339 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; cl00556 456827001340 isoleucyl-tRNA synthetase; Reviewed; Region: ileS; PRK06039 456827001341 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 456827001342 active site 456827001343 HIGH motif; other site 456827001344 nucleotide binding site [chemical binding]; other site 456827001345 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 456827001346 active site 456827001347 KMSKS motif; other site 456827001348 Anticodon-binding domain of archaeal, bacterial, and eukaryotic cytoplasmic isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_ABEc; cd07961 456827001349 tRNA binding surface [nucleotide binding]; other site 456827001350 anticodon binding site; other site 456827001351 type III restriction-modification system StyLTI enzyme res; Provisional; Region: PRK15483 456827001352 elongation factor P; Validated; Region: PRK00529 456827001353 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 456827001354 S1_EF-P_repeat_1: Translation elongation factor P (EF-P), S1-like RNA-binding domain, repeat 1. EF-P stimulates the peptidyltransferase activity in the prokaryotic 70S ribosome. EF-P enhances the synthesis of certain dipeptides with N-formylmethionyl-...; Region: S1_EF-P_repeat_1; cd04470 456827001355 RNA binding site [nucleotide binding]; other site 456827001356 S1_EF-P_repeat_2: Translation elongation factor P (EF-P), S1-like RNA-binding domain, repeat 1. EF-P stimulates the peptidyltransferase activity in the prokaryotic 70S ribosome. EF-P enhances the synthesis of certain dipeptides with N-formylmethionyl-...; Region: S1_EF-P_repeat_2; cd05794 456827001357 RNA binding site [nucleotide binding]; other site 456827001358 Immune inhibitor A peptidase M6; Region: Peptidase_M6; cl11525 456827001359 Peptidase S8 family domain in Subtilisin-like proteins; Region: Peptidases_S8_Subtilisin_like; cd07473 456827001360 putative active site [active] 456827001361 catalytic triad [active] 456827001362 Cleaved Adhesin Domain; Region: Cleaved_Adhesin; pfam07675 456827001363 Cleaved Adhesin Domain; Region: Cleaved_Adhesin; pfam07675 456827001364 Cleaved Adhesin Domain; Region: Cleaved_Adhesin; pfam07675 456827001365 Flagellar hook capping protein; Region: FlgD; cl04347 456827001366 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 456827001367 Heavy-metal-associated domain (HMA) is a conserved domain of approximately 30 amino acid residues found in a number of proteins that transport or detoxify heavy metals, for example, the CPx-type heavy metal ATPases and copper chaperones. HMA domain...; Region: HMA; cd00371 456827001368 metal-binding site [ion binding] 456827001369 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 456827001370 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others...; Region: HAD_like; cl11391 456827001371 Transposase IS200 like; Region: Y1_Tnp; cl00848 456827001372 conserved hypothetical protein; Region: glmL_fam; TIGR01319 456827001373 Predicted amidophosphoribosyltransferases [General function prediction only]; Region: ComFC; COG1040 456827001374 Phosphoribosyl transferase domain; Region: Pribosyltran; cl00309 456827001375 Type 1 glutamine amidotransferase (GATase1)-like domain found in Formylglycinamide ribonucleotide amidotransferase; Region: GATase1_FGAR_AT; cd01740 456827001376 putative active site [active] 456827001377 catalytic triad [active] 456827001378 Phosphoribosylformylglycinamidine (FGAM) synthase; Region: PurS; cl00789 456827001379 putative recombination protein RecB; Provisional; Region: PRK13909 456827001380 UvrD/REP helicase; Region: UvrD-helicase; cl14126 456827001381 UvrD/REP helicase; Region: UvrD-helicase; cl14126 456827001382 ATP-dependent nuclease, subunit B [DNA replication, recombination, and repair]; Region: AddB; COG3857 456827001383 cardiolipin synthetase; Reviewed; Region: cls; PRK01642 456827001384 Catalytic domain, repeat 1, of bacterial cardiolipin synthase and similar proteins; Region: PLDc_CLS_1; cd09110 456827001385 putative active site [active] 456827001386 catalytic site [active] 456827001387 catalytic domain repeat 2 of bacterial cardiolipin synthase and similar proteins; Region: PLDc_CLS_2; cd09112 456827001388 putative active site [active] 456827001389 catalytic site [active] 456827001390 Cobalamin binding protein BtuF. These proteins have been shown to function as initial receptors in ABC transport of vitamin B12 (cobalamin) in eubacterial and some archaeal species. They belong to the TroA superfamily of helical backbone metal...; Region: BtuF; cd01144 456827001391 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 456827001392 cobalamin binding residues [chemical binding]; other site 456827001393 putative BtuC binding residues; other site 456827001394 dimer interface [polypeptide binding]; other site 456827001395 Transmembrane subunit (TM), of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters involved in the uptake of siderophores, heme, vitamin B12, or the divalent cations Mg2+ and Zn2+. PBP-dependent ABC transporters consist...; Region: TM_ABC_iron-siderophores_like; cd06550 456827001396 ABC-ATPase subunit interface; other site 456827001397 dimer interface [polypeptide binding]; other site 456827001398 putative PBP binding regions; other site 456827001399 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3415 456827001400 Flagellar hook capping protein; Region: FlgD; cl04347 456827001401 Gram-negative bacterial tonB protein; Region: TonB; cl10048 456827001402 Biopolymer transport protein ExbD/TolR; Region: ExbD; cl00537 456827001403 Biopolymer transport protein ExbD/TolR; Region: ExbD; cl00537 456827001404 Biopolymer transport proteins [Intracellular trafficking and secretion]; Region: TolQ; COG0811 456827001405 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 456827001406 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16...; Region: OM_channels; cl00284 456827001407 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16...; Region: OM_channels; cl00284 456827001408 phosphoribosylaminoimidazole synthetase; Provisional; Region: PRK05385 456827001409 PurM (Aminoimidazole Ribonucleotide [AIR] synthetase), one of eleven enzymes required for purine biosynthesis, catalyzes the conversion of formylglycinamide ribonucleotide (FGAM) and ATP to AIR, ADP, and Pi, the fifth step in de novo purine...; Region: PurM; cd02196 456827001410 dimerization interface [polypeptide binding]; other site 456827001411 putative ATP binding site [chemical binding]; other site 456827001412 ribokinase/pfkB superfamily: Kinases that accept a wide variety of substrates, including carbohydrates and aromatic small molecules, all are phosphorylated at a hydroxyl group. The superfamily includes ribokinase, fructokinase, ketohexokinase, 2-...; Region: ribokinase_pfkB_like; cl00192 456827001413 substrate binding site [chemical binding]; other site 456827001414 ATP binding site [chemical binding]; other site 456827001415 aspartate aminotransferase; Provisional; Region: PRK08361 456827001416 Aspartate aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). Pyridoxal phosphate combines with an alpha-amino acid to form a compound called a Schiff base or aldimine...; Region: AAT_like; cd00609 456827001417 pyridoxal 5'-phosphate binding site [chemical binding]; other site 456827001418 homodimer interface [polypeptide binding]; other site 456827001419 catalytic residue [active] 456827001420 Phosphate acetyl/butaryl transferase; Region: PTA_PTB; cl00390 456827001421 Phosphotransacetylase [Energy production and conversion]; Region: Pta; COG0280 456827001422 glycyl-tRNA synthetase subunit beta; Validated; Region: glyS; PRK01233 456827001423 Glycyl-tRNA synthetase beta subunit; Region: tRNA_synt_2f; pfam02092 456827001424 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 456827001425 PTS_IIA, PTS system, fructose/mannitol specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This...; Region: PTS_IIA_fru; cd00211 456827001426 active site 456827001427 phosphorylation site [posttranslational modification] 456827001428 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 456827001429 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 456827001430 gliding motility-associated ABC transporter ATP-binding subunit GldA; Region: GldA_ABC_ATP; TIGR03522 456827001431 Walker A/P-loop; other site 456827001432 ATP binding site [chemical binding]; other site 456827001433 Q-loop/lid; other site 456827001434 ABC transporter signature motif; other site 456827001435 Walker B; other site 456827001436 D-loop; other site 456827001437 H-loop/switch region; other site 456827001438 ABC-2 type transporter; Region: ABC2_membrane; cl11417 456827001439 gliding-associated putative ABC transporter substrate-binding component GldG; Region: GldG; TIGR03521 456827001440 ABC-type uncharacterized transport system; Region: ABC_transp_aux; pfam09822 456827001441 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 456827001442 Coenzyme A binding pocket [chemical binding]; other site 456827001443 6-phosphofructokinase; Provisional; Region: PRK03202 456827001444 Phosphofructokinase, a key regulatory enzyme in glycolysis, catalyzes the phosphorylation of fructose-6-phosphate to fructose-1,6-biphosphate. The members belong to PFK family that includes ATP- and pyrophosphate (PPi)- dependent phosphofructokinases...; Region: PFK; cl00204 456827001445 active site 456827001446 ADP/pyrophosphate binding site [chemical binding]; other site 456827001447 dimerization interface [polypeptide binding]; other site 456827001448 allosteric effector site; other site 456827001449 fructose-1,6-bisphosphate binding site; other site 456827001450 tyrosyl-tRNA synthetase; Validated; Region: PRK05912 456827001451 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 456827001452 active site 456827001453 HIGH motif; other site 456827001454 dimer interface [polypeptide binding]; other site 456827001455 KMSKS motif; other site 456827001456 S4/Hsp/ tRNA synthetase RNA-binding domain; The domain surface is populated by conserved, charged residues that define a likely RNA-binding site; Found in stress proteins, ribosomal proteins and tRNA synthetases; This may imply a hitherto unrecognized...; Region: S4; cd00165 456827001457 RNA binding surface [nucleotide binding]; other site 456827001458 Uncharacterized homologs of Site-2 protease (S2P), zinc metalloproteases (MEROPS family M50) which cleave transmembrane domains of substrate proteins, regulating intramembrane proteolysis (RIP) of diverse signal transduction mechanisms. Members of the...; Region: S2P-M50_like_1; cd06158 456827001459 active site 456827001460 putative substrate binding region [chemical binding]; other site 456827001461 glutamine synthetase, type I; Region: GlnA; TIGR00653 456827001462 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 456827001463 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 456827001464 Propeptide_C25; Region: Propeptide_C25; pfam08126 456827001465 Peptidase family C25; Region: Peptidase_C25; pfam01364 456827001466 dihydroorotase; Provisional; Region: PRK02382 456827001467 Immune inhibitor A peptidase M6; Region: Peptidase_M6; cl11525 456827001468 flagellar basal body rod modification protein; Reviewed; Region: flgD; PRK06655 456827001469 M28, and M42; Region: Zinc_peptidase_like; cl14876 456827001470 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 456827001471 metal binding site [ion binding]; metal-binding site 456827001472 aspartate-semialdehyde dehydrogenase; Provisional; Region: PRK14874 456827001473 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 456827001474 Semialdehyde dehydrogenase, dimerisation domain; Region: Semialdhyde_dhC; pfam02774 456827001475 RNB domain; Region: RNB; pfam00773 456827001476 Predicted periplasmic ligand-binding sensor domain [Signal transduction mechanisms]; Region: COG3292 456827001477 Predicted periplasmic ligand-binding sensor domain [Signal transduction mechanisms]; Region: COG3292 456827001478 UDP-N-acetylmuramyl pentapeptide phosphotransferase/UDP-N- acetylglucosamine-1-phosphate transferase [Cell envelope biogenesis, outer membrane]; Region: Rfe; COG0472 456827001479 This subfamily contains Escherichia coli WecA, Bacillus subtilis TagO and related proteins. WecA is an UDP-N-acetylglucosamine (GlcNAc):undecaprenyl-phosphate (Und-P) GlcNAc-1-phosphate transferase that catalyzes the formation of a phosphodiester bond...; Region: GT_WecA_like; cd06853 456827001480 Mg++ binding site [ion binding]; other site 456827001481 putative catalytic motif [active] 456827001482 substrate binding site [chemical binding]; other site 456827001483 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 456827001484 This family is most closely related to the GT1 family of glycosyltransferases. cap1E in Streptococcus pneumoniae is required for the synthesis of type 1 capsular polysaccharides; Region: GT1_cap1E_like; cd03808 456827001485 putative ADP-binding pocket [chemical binding]; other site 456827001486 S23 ribosomal protein; Region: Ribosomal_S23p; cl05287 456827001487 G1P_cytidylyltransferase catalyzes the production of CDP-D-Glucose; Region: G1P_cytidylyltransferase; cd02524 456827001488 substrate binding site [chemical binding]; other site 456827001489 CDP-glucose 4,6-dehydratase; Region: CDP_4_6_dhtase; TIGR02622 456827001490 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 456827001491 NAD(P) binding site [chemical binding]; other site 456827001492 active site 456827001493 Cupin domain; Region: Cupin_2; cl09118 456827001494 lipopolysaccharide biosynthesis protein RfbH; Provisional; Region: PRK15407 456827001495 3-amino-5-hydroxybenzoic acid synthase family (AHBA_syn). AHBA_syn family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The members of this CD are involved in various biosynthetic pathways for secondary...; Region: AHBA_syn; cd00616 456827001496 inhibitor-cofactor binding pocket; inhibition site 456827001497 pyridoxal 5'-phosphate binding site [chemical binding]; other site 456827001498 catalytic residue [active] 456827001499 Ferredoxin reductase (FNR), an FAD and NAD(P) binding protein, was intially identified as a chloroplast reductase activity, catalyzing the electron transfer from reduced iron-sulfur protein ferredoxin to NADP+ as the final step in the electron...; Region: FNR_like; cd00322 456827001500 FAD binding pocket [chemical binding]; other site 456827001501 conserved FAD binding motif [chemical binding]; other site 456827001502 phosphate binding motif [ion binding]; other site 456827001503 beta-alpha-beta structure motif; other site 456827001504 NAD binding pocket [chemical binding]; other site 456827001505 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 456827001506 3-amino-5-hydroxybenzoic acid synthase family (AHBA_syn). AHBA_syn family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The members of this CD are involved in various biosynthetic pathways for secondary...; Region: AHBA_syn; cd00616 456827001507 inhibitor-cofactor binding pocket; inhibition site 456827001508 pyridoxal 5'-phosphate binding site [chemical binding]; other site 456827001509 catalytic residue [active] 456827001510 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 456827001511 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_c; cd04186 456827001512 Probable Catalytic site [active] 456827001513 metal binding site [ion binding]; metal-binding site 456827001514 FemAB family; Region: FemAB; cl11444 456827001515 UDP-N-acetylglucosamine diphosphorylase/glucosamine-1-phosphate N-acetyltransferase; Region: glmU; TIGR01173 456827001516 Left-handed parallel beta-Helix (LbetaH or LbH) domain: The alignment contains 5 turns, each containing three imperfect tandem repeats of a hexapeptide repeat motif (X-[STAV]-X-[LIV]-[GAED]-X). Proteins containing hexapeptide repeats are often enzymes...; Region: LbetaH; cl00160 456827001517 Left-handed parallel beta-Helix (LbetaH or LbH) domain: The alignment contains 5 turns, each containing three imperfect tandem repeats of a hexapeptide repeat motif (X-[STAV]-X-[LIV]-[GAED]-X). Proteins containing hexapeptide repeats are often enzymes...; Region: LbetaH; cl00160 456827001518 Polysaccharide biosynthesis protein; Region: Polysacc_synt; cl10513 456827001519 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 456827001520 This family is most closely related to the GT1 family of glycosyltransferases and named after YqgM in Bacillus licheniformis about which little is known. Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to...; Region: GT1_YqgM_like; cd03801 456827001521 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cl11394 456827001522 active site 456827001523 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 456827001524 Arna decarboxylase_like, extended (e) SDRs; Region: Arna_like_SDR_e; cd05257 456827001525 NAD binding site [chemical binding]; other site 456827001526 substrate binding site [chemical binding]; other site 456827001527 active site 456827001528 S23 ribosomal protein; Region: Ribosomal_S23p; cl05287 456827001529 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 456827001530 3-amino-5-hydroxybenzoic acid synthase family (AHBA_syn). AHBA_syn family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The members of this CD are involved in various biosynthetic pathways for secondary...; Region: AHBA_syn; cd00616 456827001531 inhibitor-cofactor binding pocket; inhibition site 456827001532 pyridoxal 5'-phosphate binding site [chemical binding]; other site 456827001533 catalytic residue [active] 456827001534 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 456827001535 sugar O-acyltransferase, sialic acid O-acetyltransferase NeuD family; Region: NeuD_NnaD; TIGR03570 456827001536 Putative Acyltransferase (AT), Left-handed parallel beta-Helix (LbH) domain; This group is composed of mostly uncharacterized proteins containing an N-terminal helical subdomain followed by a LbH domain. The alignment contains 6 turns, each containing...; Region: LbH_AT_putative; cd03360 456827001537 putative trimer interface [polypeptide binding]; other site 456827001538 putative CoA binding site [chemical binding]; other site 456827001539 nucleotide sugar dehydrogenase; Region: NDP-sugDHase; TIGR03026 456827001540 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 456827001541 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 456827001542 UDP-glucose/GDP-mannose dehydrogenase family, UDP binding domain; Region: UDPG_MGDP_dh_C; pfam03720 456827001543 This family is most closely related to the GT1 family of glycosyltransferases and named after YqgM in Bacillus licheniformis about which little is known. Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to...; Region: GT1_YqgM_like; cd03801 456827001544 This family is most closely related to the GT1 family of glycosyltransferases. WabH in Klebsiella pneumoniae has been shown to transfer a GlcNAc residue from UDP-GlcNAc onto the acceptor GalUA residue in the cellular outer core; Region: GT1_WabH_like; cd03811 456827001545 putative ADP-binding pocket [chemical binding]; other site 456827001546 alpha-L-glutamate ligases, RimK family; Region: rimK_fam; TIGR00768 456827001547 Glutathione synthase/Ribosomal protein S6 modification enzyme (glutaminyl transferase) [Coenzyme metabolism / Translation, ribosomal structure and biogenesis]; Region: RimK; COG0189 456827001548 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; cl03087 456827001549 Polysaccharide deacetylase; Region: Polysacc_deac_1; cl12061 456827001550 Glutamine amidotransferases class-II (GATase). The glutaminase domain catalyzes an amide nitrogen transfer from glutamine to the appropriate substrate. In this process, glutamine is hydrolyzed to glutamic acid and ammonia. This domain is related to...; Region: Gn_AT_II; cl00319 456827001551 active site 456827001552 Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. The acceptor molecule can be a lipid, a protein, a heterocyclic compound, or another carbohydrate...; Region: Glycosyltransferase_GTB_type; cl10013 456827001553 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; cl03087 456827001554 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 456827001555 Aspartate aminotransferase (AAT) superfamily (fold type I) of pyridoxal phosphate (PLP)-dependent enzymes. PLP combines with an alpha-amino acid to form a compound called a Schiff base or aldimine intermediate, which depending on the reaction, is the...; Region: AAT_I; cl00321 456827001556 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 456827001557 catalytic residue [active] 456827001558 Uncharacterized protein conserved in archaea [Function unknown]; Region: COG1817 456827001559 Bacterial members of the UDP-N-Acetylglucosamine (GlcNAc) 2-Epimerase family are known to catalyze the reversible interconversion of UDP-GlcNAc and UDP-N-acetylmannosamine (UDP-ManNAc). The enzyme serves to produce an activated form of ManNAc residues...; Region: GT1_UDP-GlcNAc_2-Epimerase; cd03786 456827001560 active site 456827001561 UDP-N-acetylglucosamine 2-epimerase; Region: Epimerase_2; pfam02350 456827001562 homodimer interface [polypeptide binding]; other site 456827001563 Polysaccharide deacetylase; Region: Polysacc_deac_1; cl12061 456827001564 Polysaccharide deacetylase; Region: Polysacc_deac_1; cl12061 456827001565 Phosphopantetheine attachment site; Region: PP-binding; cl09936 456827001566 Acyl-protein synthetase, LuxE; Region: LuxE; cl10450 456827001567 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 456827001568 classical (c) SDRs; Region: SDR_c; cd05233 456827001569 NAD(P) binding site [chemical binding]; other site 456827001570 active site 456827001571 VanZ like family; Region: VanZ; cl01971 456827001572 Polysaccharide deacetylase; Region: Polysacc_deac_1; cl12061 456827001573 Polysaccharide deacetylase; Region: Polysacc_deac_1; cl12061 456827001574 Domain of unknown function (DUF3473); Region: DUF3473; pfam11959 456827001575 Maltose O-acyltransferase (MAT)-like: This family is composed of maltose O-acetyltransferase, galactoside O-acetyltransferase (GAT), xenobiotic acyltransferase (XAT) and similar proteins. MAT and GAT catalyze the CoA-dependent acetylation of the 6-...; Region: LbH_MAT_like; cd04647 456827001576 trimer interface [polypeptide binding]; other site 456827001577 active site 456827001578 substrate binding site [chemical binding]; other site 456827001579 CoA binding site [chemical binding]; other site 456827001580 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09352 456827001581 Ketoacyl-acyl carrier protein synthase III (KASIII) initiates the elongation in type II fatty acid synthase systems. It is found in bacteria and plants. Elongation of fatty acids in the type II systems occurs by Claisen condensation of malonyl-acyl...; Region: KAS_III; cd00830 456827001582 dimer interface [polypeptide binding]; other site 456827001583 active site 456827001584 CoA binding pocket [chemical binding]; other site 456827001585 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 456827001586 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 456827001587 NAD(P) binding site [chemical binding]; other site 456827001588 active site 456827001589 Vi polysaccharide biosynthesis protein TviC; Provisional; Region: PRK15181 456827001590 UDP-N-acetylglucosamine 4-epimerase, extended (e) SDRs; Region: UDP_AE_SDR_e; cd05256 456827001591 NAD binding site [chemical binding]; other site 456827001592 substrate binding site [chemical binding]; other site 456827001593 homodimer interface [polypeptide binding]; other site 456827001594 active site 456827001595 exopolysaccharide biosynthesis polyprenyl glycosylphosphotransferase; Region: EPS_sugtrans; TIGR03025 456827001596 Bacterial sugar transferase; Region: Bac_transf; cl00939 456827001597 Transposase IS200 like; Region: Y1_Tnp; cl00848 456827001598 Transposase domain (DUF772); Region: DUF772; cl12084 456827001599 MOFRL family; Region: MOFRL; cl01013 456827001600 Uncharacterized anaerobic dehydrogenase [General function prediction only]; Region: COG3383 456827001601 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 456827001602 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 456827001603 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 456827001604 The HCP family of iron-sulfur proteins includes hybrid cluster protein (HCP), acetyl-CoA synthase (ACS), and carbon monoxide dehydrogenase (CODH), all of which contain [Fe4-S4] metal clusters at their active sites. These proteins have a conserved alpha-; Region: HCP_like; cl14655 456827001605 Aldehyde:ferredoxin oxidoreductase [Energy production and conversion]; Region: COG2414 456827001606 Aldehyde ferredoxin oxidoreductase, N-terminal domain; Region: AFOR_N; cl08354 456827001607 Aldehyde ferredoxin oxidoreductase, domains 2 & 3; Region: AFOR_C; pfam01314 456827001608 DNA repair protein RadA; Provisional; Region: PRK11823 456827001609 Sms (bacterial radA) DNA repair protein. This protein is not related to archael radA any more than is to other RecA-like NTPases. Sms has a role in recombination and recombinational repair and is responsible for the stabilization or processing of...; Region: Sms; cd01121 456827001610 Walker A motif/ATP binding site; other site 456827001611 ATP binding site [chemical binding]; other site 456827001612 Walker B motif; other site 456827001613 NrdH-redoxin (NrdH) family; NrdH is a small monomeric protein with a conserved redox active CXXC motif within a TRX fold, characterized by a glutaredoxin (GRX)-like sequence and TRX-like activity profile. In vitro, it displays protein disulfide...; Region: NrdH; cd02976 456827001614 catalytic residues [active] 456827001615 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 456827001616 sporulation protein YqfD; Region: spore_yqfD; TIGR02876 456827001617 OsmC-like protein; Region: OsmC; cl00767 456827001618 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 456827001619 putative chlorohydrolase/aminohydrolase; Validated; Region: PRK07203 456827001620 Superfamily of metallo-dependent hydrolases (also called amidohydrolase superfamily) is a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the members have...; Region: metallo-dependent_hydrolases; cl00281 456827001621 active site 456827001622 peptidase; Reviewed; Region: PRK13004 456827001623 M20 Peptidases with similarity to acetylornithine deacetylases and succinyl-diaminopimelate desuccinylases; Region: M20_ArgE_DapE_like4; cd05649 456827001624 putative metal binding site [ion binding]; other site 456827001625 putative dimer interface [polypeptide binding]; other site 456827001626 threonine synthase; Validated; Region: PRK06260 456827001627 Threonine synthase is a pyridoxal phosphate (PLP) dependent enzyme that catalyses the last reaction in the synthesis of threonine from aspartate. It proceeds by converting O-phospho-L-homoserine (OPH) into threonine and inorganic phosphate. In plants...; Region: Thr-synth_1; cd01563 456827001628 homodimer interface [polypeptide binding]; other site 456827001629 pyridoxal 5'-phosphate binding site [chemical binding]; other site 456827001630 catalytic residue [active] 456827001631 Superfamily of metallo-dependent hydrolases (also called amidohydrolase superfamily) is a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the members have...; Region: metallo-dependent_hydrolases; cl00281 456827001632 active site 456827001633 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 456827001634 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; pfam01315 456827001635 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 456827001636 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 456827001637 Ferredoxin reductase (FNR), an FAD and NAD(P) binding protein, was intially identified as a chloroplast reductase activity, catalyzing the electron transfer from reduced iron-sulfur protein ferredoxin to NADP+ as the final step in the electron...; Region: FNR_like; cl06868 456827001638 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 456827001639 aspartate/ornithine carbamoyltransferase family protein; Validated; Region: PRK07200 456827001640 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 456827001641 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 456827001642 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 456827001643 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 456827001644 NAD(P) binding site [chemical binding]; other site 456827001645 active site 456827001646 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 456827001647 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 456827001648 asparaginyl-tRNA synthetase; Validated; Region: asnC; PRK03932 456827001649 Replication protein A, class 2b aminoacyl-tRNA synthetases, and related proteins with oligonucleotide/oligosaccharide (OB) fold; Region: RPA_2b-aaRSs_OBF_like; cl09930 456827001650 Dimer interface [polypeptide binding]; other site 456827001651 anticodon binding site; other site 456827001652 Asx tRNA synthetase (AspRS/AsnRS) class II core domain. Assignment to class II aminoacyl-tRNA synthetases (aaRS) based upon its structure and the presence of three characteristic sequence motifs in the core domain. This family includes AsnRS as well...; Region: AsxRS_core; cd00776 456827001653 homodimer interface [polypeptide binding]; other site 456827001654 motif 1; other site 456827001655 motif 2; other site 456827001656 active site 456827001657 motif 3; other site 456827001658 aspartate aminotransferase; Provisional; Region: PRK08361 456827001659 Aspartate aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). Pyridoxal phosphate combines with an alpha-amino acid to form a compound called a Schiff base or aldimine...; Region: AAT_like; cd00609 456827001660 pyridoxal 5'-phosphate binding site [chemical binding]; other site 456827001661 homodimer interface [polypeptide binding]; other site 456827001662 catalytic residue [active] 456827001663 Type II secretory pathway, prepilin signal peptidase PulO and related peptidases [Cell motility and secretion / Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: PulO; COG1989 456827001664 Bacterial Peptidase A24 N-terminal domain; Region: DiS_P_DiS; pfam06750 456827001665 Type IV leader peptidase family; Region: Peptidase_A24; cl02077 456827001666 Aminoglycoside 3'-phosphotransferase (APH) and Choline Kinase (ChoK) family. The APH/ChoK family is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs)...; Region: APH_ChoK_like; cd05120 456827001667 active site 456827001668 ATP binding site [chemical binding]; other site 456827001669 substrate binding site [chemical binding]; other site 456827001670 Gluconolactonase [Carbohydrate transport and metabolism]; Region: COG3386 456827001671 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 456827001672 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 456827001673 active site 456827001674 HIGH motif; other site 456827001675 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 456827001676 KMSKS motif; other site 456827001677 Anticodon-binding domain of cysteinyl tRNA synthetases; Region: Anticodon_Ia_Cys; cd07963 456827001678 tRNA binding surface [nucleotide binding]; other site 456827001679 anticodon binding site; other site 456827001680 Peptidase family C25; Region: Peptidase_C25; pfam01364 456827001681 Predicted SPOUT methyltransferase; Region: SPOUT_MTase; cl00679 456827001682 Phosphate acetyl/butaryl transferase; Region: PTA_PTB; cl00390 456827001683 Phosphotransacetylase [Energy production and conversion]; Region: Pta; COG0280 456827001684 RNA polymerase sigma factor RpoS; Region: rpoS_proteo; TIGR02394 456827001685 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 456827001686 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 456827001687 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial...; Region: Sigma70_r4; cd06171 456827001688 DNA binding residues [nucleotide binding] 456827001689 Lysin domain, found in a variety of enzymes involved in bacterial cell wall degradation. This domain may have a general peptidoglycan binding function; Region: LysM; cd00118 456827001690 putative peptidoglycan binding site; other site 456827001691 FOG: LysM repeat [Cell envelope biogenesis, outer membrane]; Region: LytE; COG1388 456827001692 Lysin domain, found in a variety of enzymes involved in bacterial cell wall degradation. This domain may have a general peptidoglycan binding function; Region: LysM; cd00118 456827001693 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 456827001694 putative peptidoglycan binding site; other site 456827001695 Lysin domain, found in a variety of enzymes involved in bacterial cell wall degradation. This domain may have a general peptidoglycan binding function; Region: LysM; cd00118 456827001696 putative peptidoglycan binding site; other site 456827001697 Peptidase family M23; Region: Peptidase_M23; pfam01551 456827001698 Acylphosphatase; Region: Acylphosphatase; cl00551 456827001699 Na+/phosphate symporter [Inorganic ion transport and metabolism]; Region: NptA; COG1283 456827001700 Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690 456827001701 Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690 456827001702 PhoU domain; Region: PhoU; pfam01895 456827001703 PhoU domain; Region: PhoU; pfam01895 456827001704 D-arabinose 5-phosphate isomerase; Provisional; Region: PRK10892 456827001705 KpsF-like protein. KpsF is an arabinose-5-phosphate isomerase which contains SIS (Sugar ISomerase) domains. SIS domains are found in many phosphosugar isomerases and phosphosugar binding proteins. KpsF catalyzes the reversible reaction of ribulose 5-...; Region: SIS_Kpsf; cd05014 456827001706 putative active site [active] 456827001707 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains associated with KpsF/GutQ domains in the API [A5P (D-arabinose 5-phosphate) isomerase] protein. These APIs catalyze the conversion of the pentose pathway...; Region: CBS_pair_KpsF_GutQ_assoc; cd04604 456827001708 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK00413 456827001709 TGS _ThrRS_N: ThrRS (threonyl-tRNA Synthetase) is a class II tRNA synthetase that couples threonine to its cognate tRNA. In addition to its catalytic and anticodon-binding domains, ThrRS has an N-terminal TGS domain, named after the ThrRS, GTPase...; Region: TGS_ThrRS_N; cd01667 456827001710 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; cl08469 456827001711 Threonyl-tRNA synthetase (ThrRS) class II core catalytic domain. ThrRS is a homodimer. It is responsible for the attachment of threonine to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for ATP-dependent...; Region: ThrRS_core; cd00771 456827001712 active site 456827001713 dimer interface [polypeptide binding]; other site 456827001714 motif 1; other site 456827001715 motif 2; other site 456827001716 motif 3; other site 456827001717 ThrRS Threonyl-anticodon binding domain. ThrRS belongs to class II aminoacyl-tRNA synthetases (aaRS). This alignment contains the anticodon binding domain, which is responsible for specificity in tRNA-binding, so that the activated amino acid is...; Region: ThrRS_anticodon; cd00860 456827001718 anticodon binding site; other site 456827001719 Heavy-metal-associated domain (HMA) is a conserved domain of approximately 30 amino acid residues found in a number of proteins that transport or detoxify heavy metals, for example, the CPx-type heavy metal ATPases and copper chaperones. HMA domain...; Region: HMA; cl00207 456827001720 heavy metal-(Cd/Co/Hg/Pb/Zn)-translocating P-type ATPase; Region: ATPase-IB2_Cd; TIGR01512 456827001721 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 456827001722 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others...; Region: HAD_like; cl11391 456827001723 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 456827001724 dimerization interface [polypeptide binding]; other site 456827001725 putative DNA binding site [nucleotide binding]; other site 456827001726 putative Zn2+ binding site [ion binding]; other site 456827001727 Phosphate acetyl/butaryl transferase; Region: PTA_PTB; cl00390 456827001728 Phosphotransacetylase [Energy production and conversion]; Region: Pta; COG0280 456827001729 Phosphate acetyl/butaryl transferase; Region: PTA_PTB; cl00390 456827001730 Phosphotransacetylase [Energy production and conversion]; Region: Pta; COG0280 456827001731 Ribose/Galactose Isomerase; Region: LacAB_rpiB; cl00485 456827001732 Serine-glycine hydroxymethyltransferase (SHMT). This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). SHMT carries out interconversion of serine and glycine; it catalyzes the transfer of...; Region: SHMT; cd00378 456827001733 dimer interface [polypeptide binding]; other site 456827001734 glycine-pyridoxal phosphate binding site [chemical binding]; other site 456827001735 active site 456827001736 folate binding site [chemical binding]; other site 456827001737 exopolyphosphatase; Region: exo_poly_only; TIGR03706 456827001738 Ppx/GppA phosphatase family; Region: Ppx-GppA; pfam02541 456827001739 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: MgtA; COG0474 456827001740 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; cl02930 456827001741 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 456827001742 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others...; Region: HAD_like; cl11391 456827001743 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 456827001744 heat shock gene repressor HrcA; Region: hrcA; TIGR00331 456827001745 HrcA protein C terminal domain; Region: HrcA; pfam01628 456827001746 GrpE is the adenine nucleotide exchange factor of DnaK (Hsp70)-type ATPases. The GrpE dimer binds to the ATPase domain of Hsp70 catalyzing the dissociation of ADP, which enables rebinding of ATP, one step in the Hsp70 reaction cycle in protein folding...; Region: GrpE; cd00446 456827001747 dimer interface [polypeptide binding]; other site 456827001748 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 456827001749 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 456827001750 chaperone protein DnaJ; Region: DnaJ_bact; TIGR02349 456827001751 DnaJ domain or J-domain. DnaJ/Hsp40 (heat shock protein 40) proteins are highly conserved and play crucial roles in protein translation, folding, unfolding, translocation, and degradation. They act primarily by stimulating the ATPase activity of...; Region: DnaJ; cd06257 456827001752 HSP70 interaction site [polypeptide binding]; other site 456827001753 DnaJ central domain; Region: DnaJ_CXXCXGXG; cl14908 456827001754 DnaJ C terminal domain; Region: DnaJ_C; pfam01556 456827001755 RNA methyltransferase; Region: Methyltrans_RNA; cl00611 456827001756 Tetraacyldisaccharide-1-P 4'-kinase [Cell envelope biogenesis, outer membrane]; Region: LpxK; COG1663 456827001757 Tetraacyldisaccharide-1-P 4'-kinase; Region: LpxK; cl03652 456827001758 Response regulator receiver domain; Region: Response_reg; pfam00072 456827001759 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems...; Region: REC; cd00156 456827001760 active site 456827001761 phosphorylation site [posttranslational modification] 456827001762 intermolecular recognition site; other site 456827001763 dimerization interface [polypeptide binding]; other site 456827001764 non-metazoan 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR) synthase; Region: SAICAR_synt_Sc; cd01414 456827001765 active site 456827001766 ATP binding site [chemical binding]; other site 456827001767 substrate binding site [chemical binding]; other site 456827001768 Nuclease subunit of the excinuclease complex [DNA replication, recombination, and repair]; Region: UvrC; COG0322 456827001769 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 456827001770 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits...; Region: TM_PBP2; cd06261 456827001771 dimer interface [polypeptide binding]; other site 456827001772 conserved gate region; other site 456827001773 putative PBP binding loops; other site 456827001774 ABC-ATPase subunit interface; other site 456827001775 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits...; Region: TM_PBP2; cd06261 456827001776 dimer interface [polypeptide binding]; other site 456827001777 conserved gate region; other site 456827001778 putative PBP binding loops; other site 456827001779 ABC-ATPase subunit interface; other site 456827001780 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 456827001781 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 456827001782 Walker A/P-loop; other site 456827001783 ATP binding site [chemical binding]; other site 456827001784 Q-loop/lid; other site 456827001785 ABC transporter signature motif; other site 456827001786 Walker B; other site 456827001787 D-loop; other site 456827001788 H-loop/switch region; other site 456827001789 TOBE domain; Region: TOBE_2; cl01440 456827001790 Porphyromonas-type peptidyl-arginine deiminase; Region: PAD_porph; cl01113 456827001791 agmatine deiminase; Region: agmatine_aguA; TIGR03380 456827001792 Flagellar hook capping protein; Region: FlgD; cl04347 456827001793 Predicted phosphatase/phosphohexomutase [General function prediction only]; Region: COG0637 456827001794 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others...; Region: HAD_like; cl11391 456827001795 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others...; Region: HAD_like; cd01427 456827001796 motif II; other site 456827001797 AMMECR1; Region: AMMECR1; cl00911 456827001798 Memo (mediator of ErbB2-driven cell motility) is co-precipitated with the C terminus of ErbB2, a protein involved in cell motility; Region: MEMO_like; cd07361 456827001799 putative ligand binding pocket/active site [active] 456827001800 putative metal binding site [ion binding]; other site 456827001801 Protein of unknown function, DUF399; Region: DUF399; cl01139 456827001802 Uncharacterized conserved protein [Function unknown]; Region: COG1739 456827001803 Uncharacterized protein family UPF0029; Region: UPF0029; pfam01205 456827001804 DNA polymerase V subunit UmuC; Reviewed; Region: umuC; PRK03609 456827001805 umuC subunit of DNA Polymerase V; Region: PolY_Pol_V_umuC; cd01700 456827001806 active site 456827001807 DNA binding site [nucleotide binding] 456827001808 cell division protein FtsZ; Validated; Region: PRK09330 456827001809 FtsZ is a GTPase that is similar to the eukaryotic tubulins and is essential for cell division in prokaryotes. FtsZ is capable of polymerizing in a GTP-driven process into structures similar to those formed by tubulin. FtsZ forms a ring-shaped septum...; Region: FtsZ_type1; cd02201 456827001810 nucleotide binding site [chemical binding]; other site 456827001811 SulA interaction site; other site 456827001812 Cell division ATPase FtsA [Cell division and chromosome partitioning]; Region: ftsA; COG0849 456827001813 Cell division protein FtsA; Region: FtsA; cl11496 456827001814 Cell division protein FtsA; Region: FtsA; cl11496 456827001815 Cell division septal protein [Cell envelope biogenesis, outer membrane]; Region: FtsQ; COG1589 456827001816 POTRA domain, FtsQ-type; Region: POTRA_1; pfam08478 456827001817 UDP-N-acetylmuramate--L-alanine ligase; Provisional; Region: murC; PRK00421 456827001818 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 456827001819 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 456827001820 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 456827001821 undecaprenyldiphospho-muramoylpentapeptide beta-N- acetylglucosaminyltransferase; Provisional; Region: murG; PRK00726 456827001822 MurG is an N-acetylglucosaminyltransferase, the last enzyme involved in the intracellular phase of peptidoglycan biosynthesis. It transfers N-acetyl-D-glucosamine (GlcNAc) from UDP-GlcNAc to the C4 hydroxyl of a lipid-linked N-acetylmuramoyl...; Region: GT1_MurG; cd03785 456827001823 active site 456827001824 homodimer interface [polypeptide binding]; other site 456827001825 Cell cycle protein; Region: FTSW_RODA_SPOVE; cl00511 456827001826 UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional; Region: murD; PRK02472 456827001827 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 456827001828 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 456827001829 phospho-N-acetylmuramoyl-pentapeptide-transferase; Provisional; Region: mraY; PRK00108 456827001830 Phospho-N-acetylmuramoyl-pentapeptide-transferase (mraY) is an enzyme responsible for the formation of the first lipid intermediate in the synthesis of bacterial cell wall peptidoglycan. It catalyzes the formation of undecaprenyl-pyrophosphoryl-N-...; Region: GT_MraY; cd06852 456827001831 Mg++ binding site [ion binding]; other site 456827001832 putative catalytic motif [active] 456827001833 putative substrate binding site [chemical binding]; other site 456827001834 putative bifunctional UDP-N-acetylmuramoylalanyl-D-glutamate--2, 6-diaminopimelate ligase/UDP-N-acetylmuramoyl-tripeptide:D-alanyl-D-alanine ligase; Provisional; Region: PRK11929 456827001835 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 456827001836 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 456827001837 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 456827001838 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 456827001839 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 456827001840 Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]; Region: FtsI; COG0768 456827001841 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 456827001842 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01039 456827001843 PASTA domain of bacterial serine/threonine kinase pknB-like proteins. PknB is a member of a group of related transmembrane sensor kinases present in many gram positive bacteria, which has been shown to regulate cell shape in Mycobacterium tubercolosis...; Region: PASTA_pknB; cd06577 456827001844 PASTA domain of PBP2x-like proteins, second repeat. Penicillin-binding proteins (PBPs) are the major targets for beta-lactam antibiotics, like penicillins and cephalosporins. Beta-lactam antibiotics specifically inhibit transpeptidase activity by...; Region: PASTA_Pbp2x-like_2; cd06575 456827001845 Predicted S-adenosylmethionine-dependent methyltransferase involved in cell envelope biogenesis [Cell envelope biogenesis, outer membrane]; Region: COG0275 456827001846 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy)...; Region: AdoMet_MTases; cl12011 456827001847 cell division protein MraZ; Reviewed; Region: PRK00326 456827001848 excinuclease ABC subunit C; Validated; Region: uvrC; PRK00558 456827001849 GIY-YIG catalytic domain; Region: GIY-YIG; cl01061 456827001850 UvrB/uvrC motif; Region: UVR; pfam02151 456827001851 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 456827001852 Helix-hairpin-helix motif; Region: HHH_2; pfam12826 456827001853 Uncharacterized membrane protein, putative virulence factor [General function prediction only]; Region: MviN; COG0728 456827001854 MatE; Region: MatE; pfam01554 456827001855 DNA polymerase III, delta' subunit; Region: holB; TIGR00678 456827001856 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 456827001857 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 456827001858 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 456827001859 putative TIM-barrel protein, nifR3 family; Region: nifR3_yhdG; TIGR00737 456827001860 Dihydrouridine synthase-like (DUS-like) FMN-binding domain. Members of this family catalyze the reduction of the 5,6-double bond of a uridine residue on tRNA. Dihydrouridine modification of tRNA is widely observed in prokaryotes and eukaryotes, and...; Region: DUS_like_FMN; cd02801 456827001861 FMN binding site [chemical binding]; other site 456827001862 active site 456827001863 catalytic residues [active] 456827001864 substrate binding site [chemical binding]; other site 456827001865 GAF domain; Region: GAF; cl00853 456827001866 c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms]; Region: COG2206 456827001867 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 456827001868 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy)...; Region: AdoMet_MTases; cl12011 456827001869 signal recognition particle-docking protein FtsY; Provisional; Region: PRK10416 456827001870 SRP54-type protein, helical bundle domain; Region: SRP54_N; pfam02881 456827001871 The signal recognition particle (SRP) mediates the transport to or across the plasma membrane in bacteria and the endoplasmic reticulum in eukaryotes. SRP recognizes N-terminal sighnal sequences of newly synthesized polypeptides at the ribosome. The...; Region: SRP; cd03115 456827001872 P loop; other site 456827001873 GTP binding site [chemical binding]; other site 456827001874 Protein of unknown function (DUF3467); Region: DUF3467; pfam11950 456827001875 Flagellar hook capping protein; Region: FlgD; cl04347 456827001876 Phosphoglycerate kinase (PGK) is a monomeric enzyme which catalyzes the transfer of the high-energy phosphate group of 1,3-bisphosphoglycerate to ADP, forming ATP and 3-phosphoglycerate. This reaction represents the first of the two substrate-level...; Region: Phosphoglycerate_kinase; cl00198 456827001877 substrate binding site [chemical binding]; other site 456827001878 hinge regions; other site 456827001879 ADP binding site [chemical binding]; other site 456827001880 catalytic site [active] 456827001881 methylmalonyl-CoA mutase, heterodimeric type, beta chain; Region: mmCoA_mut_beta; TIGR00642 456827001882 Coenzyme B12-dependent-methylmalonyl coenzyme A (CoA) mutase (MCM) family, Beta subunit-like subfamily; contains bacterial proteins similar to the beta subunit of MCMs from Propionbacterium shermanni and Streptomyces cinnamonensis, which are alpha/beta...; Region: MM_CoA_mutase_beta; cd03677 456827001883 heterodimer interface [polypeptide binding]; other site 456827001884 substrate interaction site [chemical binding]; other site 456827001885 B12 binding domain (B12-BD). Most of the members bind different cobalamid derivates, like B12 (adenosylcobamide) or methylcobalamin or methyl-Co(III) 5-hydroxybenzimidazolylcobamide. This domain is found in several enzymes, such as glutamate mutase...; Region: B12-binding_like; cl00293 456827001886 methylmalonyl-CoA mutase; Reviewed; Region: PRK09426 456827001887 Coenzyme B12-dependent-methylmalonyl coenzyme A (CoA) mutase (MCM) family, Alpha subunit-like subfamily; contains proteins similar to the alpha subunit of Propionbacterium shermanni MCM, as well as human and E. coli MCM. Members of this subfamily...; Region: MM_CoA_mutase_alpha_like; cd03679 456827001888 active site 456827001889 substrate binding site [chemical binding]; other site 456827001890 coenzyme B12 binding site [chemical binding]; other site 456827001891 methylmalonyl CoA mutase B12 binding domain. This domain binds to B12 (adenosylcobamide), which initiates the conversion of succinyl CoA and methylmalonyl CoA by forming an adenosyl radical, which then undergoes a rearrangement exchanging a hydrogen...; Region: MM_CoA_mut_B12_BD; cd02071 456827001892 B12 binding site [chemical binding]; other site 456827001893 cobalt ligand [ion binding]; other site 456827001894 membrane ATPase/protein kinase; Provisional; Region: PRK09435 456827001895 The function of this protein family is unkown. The protein sequences are similar to the ArgK protein in E. coli. ArgK protein is a membrane ATPase which is required for transporting arginine, ornithine and lysine into the cells by the arginine and...; Region: ArgK-like; cd03114 456827001896 Walker A; other site 456827001897 Ras-like GTPase superfamily. The Ras-like superfamily of small GTPases consists of several families with an extremely high degree of structural and functional similarity. The Ras superfamily is divided into at least four families in eukaryotes: the Ras...; Region: Ras_like_GTPase; cl10444 456827001898 Cache domain; Region: Cache_1; pfam02743 456827001899 Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices connected by an extended linker. The...; Region: HAMP; cd06225 456827001900 dimerization interface [polypeptide binding]; other site 456827001901 Sigma factor PP2C-like phosphatases; Region: PP2C_SIG; smart00331 456827001902 Serine/threonine phosphatases, family 2C, catalytic domain; The protein architecture and deduced catalytic mechanism of PP2C phosphatases are similar to the PP1, PP2A, PP2B family of protein Ser/Thr phosphatases, with which PP2C shares no sequence...; Region: PP2Cc; cl00120 456827001903 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 456827001904 CTP synthetase; Validated; Region: pyrG; PRK05380 456827001905 CTP synthetase (CTPs) is a two-domain protein, which consists of an N-terminal synthetase domain and C-terminal glutaminase domain. The enzymes hydrolyze the amide bond of glutamine to ammonia and glutamate at the glutaminase domains and transfer...; Region: CTGs; cd03113 456827001906 Catalytic site [active] 456827001907 Active site [active] 456827001908 UTP binding site [chemical binding]; other site 456827001909 Type 1 glutamine amidotransferase (GATase1) domain found in Cytidine Triphosphate Synthetase; Region: GATase1_CTP_Synthase; cd01746 456827001910 active site 456827001911 putative oxyanion hole; other site 456827001912 catalytic triad [active] 456827001913 Glutamate-1-semialdehyde aminotransferase [Coenzyme metabolism]; Region: HemL; COG0001 456827001914 Aspartate aminotransferase (AAT) superfamily (fold type I) of pyridoxal phosphate (PLP)-dependent enzymes. PLP combines with an alpha-amino acid to form a compound called a Schiff base or aldimine intermediate, which depending on the reaction, is the...; Region: AAT_I; cl00321 456827001915 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 456827001916 catalytic residue [active] 456827001917 putative acyltransferase; Provisional; Region: PRK05790 456827001918 Thiolase are ubiquitous enzymes that catalyze the reversible thiolytic cleavage of 3-ketoacyl-CoA into acyl-CoA and acetyl-CoA, a 2-step reaction involving a covalent intermediate formed with a catalytic cysteine. They are found in prokaryotes and...; Region: thiolase; cd00751 456827001919 dimer interface [polypeptide binding]; other site 456827001920 active site 456827001921 Transposase domain (DUF772); Region: DUF772; cl12084 456827001922 Meprin, A5 protein, and protein tyrosine phosphatase Mu (MAM) domain. MAM is an extracellular domain which mediates protein-protein interactions and is found in a diverse set of proteins, many of which are known to function in cell adhesion. Members...; Region: MAM; cl02479 456827001923 Flagellar hook capping protein; Region: FlgD; cl04347 456827001924 TRX family; composed of two groups: Group I, which includes proteins that exclusively encode a TRX domain; and Group II, which are composed of fusion proteins of TRX and additional domains. Group I TRX is a small ancient protein that alter the redox...; Region: TRX_family; cd02947 456827001925 catalytic residues [active] 456827001926 Chaperonin 10 Kd subunit (cpn10 or GroES); Cpn10 cooperates with chaperonin 60 (cpn60 or GroEL), an ATPase, to assist the folding and assembly of proteins and is found in eubacterial cytosol, as well as in the matrix of mitochondria and chloroplasts...; Region: cpn10; cd00320 456827001927 oligomerisation interface [polypeptide binding]; other site 456827001928 mobile loop; other site 456827001929 roof hairpin; other site 456827001930 Uridine monophosphate kinase (UMPK, EC 2.7.1.48), also known as uridine kinase or uridine-cytidine kinase (UCK), catalyzes the reversible phosphoryl transfer from ATP to uridine or cytidine to yield UMP or CMP. In the primidine nucleotide-salvage...; Region: UMPK; cd02023 456827001931 ATP-binding site [chemical binding]; other site 456827001932 Sugar specificity; other site 456827001933 Pyrimidine base specificity; other site 456827001934 excinuclease ABC subunit B; Provisional; Region: PRK05298 456827001935 DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region; Region: DEXDc; cd00046 456827001936 ATP binding site [chemical binding]; other site 456827001937 Helicase superfamily c-terminal domain; associated with DEXDc-, DEAD-, and DEAH-box proteins, yeast initiation factor 4A, Ski2p, and Hepatitis C virus NS3 helicases; this domain is found in a wide variety of helicases and helicase related proteins; may...; Region: HELICc; cd00079 456827001938 nucleotide binding region [chemical binding]; other site 456827001939 ATP-binding site [chemical binding]; other site 456827001940 Ultra-violet resistance protein B; Region: UvrB; pfam12344 456827001941 UvrB/uvrC motif; Region: UVR; pfam02151 456827001942 Nucleoside diphosphate kinase Group I (NDPk_I)-like: NDP kinase domains are present in a large family of structurally and functionally conserved proteins from bacteria to humans that generally catalyze the transfer of gamma-phosphates of a nucleoside...; Region: NDPk_I; cd04413 456827001943 active site 456827001944 multimer interface [polypeptide binding]; other site 456827001945 putative PEP-CTERM system TPR-repeat lipoprotein; Region: PEP_TPR_lipo; TIGR02917 456827001946 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi...; Region: TPR; cd00189 456827001947 binding surface 456827001948 TPR motif; other site 456827001949 translocation protein TolB; Provisional; Region: tolB; PRK02889 456827001950 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 456827001951 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 456827001952 Periplasmic protease [Cell envelope biogenesis, outer membrane]; Region: Prc; COG0793 456827001953 Tricorn protease; serine protease family S41; Region: Peptidase_S41_TRI; cd07562 456827001954 Domain interface; other site 456827001955 Peptide binding site; other site 456827001956 Active site tetrad [active] 456827001957 Protein of unknown function (DUF342); Region: DUF342; pfam03961 456827001958 Multi-copper polyphenol oxidoreductase laccase; Region: Cu-oxidase_4; cl00650 456827001959 H+ Antiporter protein; Region: 2A0121; TIGR00900 456827001960 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 456827001961 putative substrate translocation pore; other site 456827001962 ATP-dependent protease ATP-binding subunit HslU; Provisional; Region: hslU; PRK05201 456827001963 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 456827001964 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes...; Region: AAA; cd00009 456827001965 Walker A motif; other site 456827001966 ATP binding site [chemical binding]; other site 456827001967 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 456827001968 Protease HslV and the ATPase/chaperone HslU are part of an ATP-dependent proteolytic system that is the prokaryotic homolog of the proteasome. HslV is a dimer of hexamers (a dodecamer) that forms a central proteolytic chamber with active sites on the...; Region: protease_HslV; cd01913 456827001969 active site 456827001970 HslU subunit interaction site [polypeptide binding]; other site 456827001971 ATP-dependent metalloprotease FtsH; Region: FtsH_fam; TIGR01241 456827001972 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes...; Region: AAA; cd00009 456827001973 Walker A motif; other site 456827001974 ATP binding site [chemical binding]; other site 456827001975 Walker B motif; other site 456827001976 arginine finger; other site 456827001977 Peptidase family M41; Region: Peptidase_M41; pfam01434 456827001978 Phosphoribosyl transferase domain; Region: Pribosyltran; cl00309 456827001979 N-terminal domain of predicted ATPase of the PP-loop faimly implicated in cell cycle control [Cell division and chromosome partitioning]. This is a subfamily of Adenine nucleotide alpha hydrolases superfamily.Adeninosine nucleotide alpha hydrolases...; Region: PP-ATPase; cd01992 456827001980 Ligand Binding Site [chemical binding]; other site 456827001981 B3/4 domain; Region: B3_4; cl11458 456827001982 Uncharacterized protein conserved in bacteria (DUF2135); Region: DUF2135; cl01910 456827001983 Prim_Pol: Primase-polymerase (primpol) domain of the type found in bifunctional replicases from archaeal plasmids, including ORF904 protein of the crenarchaeal plasmid pRN1 from Sulfolobus islandicus (pRN1 primpol). These primpol domains belong to the...; Region: Prim_Pol; cd04859 456827001984 nucleotide binding site [chemical binding]; other site 456827001985 polymerase nucleotide-binding site; other site 456827001986 primase nucleotide-binding site [nucleotide binding]; other site 456827001987 DNA-binding residues [nucleotide binding]; DNA binding site 456827001988 Primase C terminal 2 (PriCT-2); Region: PriCT_2; pfam08707 456827001989 CRISPR/Cas system-associated RAMP superfamily protein Cas6; Region: Cas6-I-III; cl11443 456827001990 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 456827001991 CRISPR-associated protein Cas10/Csm1, subtype III-A/MTUBE; Region: cas_TM1811_Csm1; TIGR02578 456827001992 CRISPR/Cas system-associated RAMP superfamily protein; Region: RAMP_I_III; cl00592 456827001993 CRISPR/Cas system-associated RAMP superfamily protein; Region: RAMP_I_III; cl00592 456827001994 CRISPR/Cas system-associated RAMP superfamily protein; Region: RAMP_I_III; cl00592 456827001995 CRISPR/Cas system-associated protein Csm6; Region: Csm6_III-A; cl01634 456827001996 CRISPR/Cas system-associated protein Csx1; Region: Csx1_III-U; cl09839 456827001997 Superfamily of metallo-dependent hydrolases (also called amidohydrolase superfamily) is a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the members have...; Region: metallo-dependent_hydrolases; cl00281 456827001998 active site 456827001999 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi...; Region: TPR; cd00189 456827002000 binding surface 456827002001 TPR motif; other site 456827002002 AE_Prim_S_like: primase domain similar to that found in the small subunit of archaeal and eukaryotic (A/E) DNA primases. The replication machineries of A/Es are distinct from that of bacteria. Primases are DNA-dependent RNA polymerases which synthesis...; Region: AE_Prim_S_like; cl01287 456827002003 CRISPR/Cas system-associated protein Cas1; Region: Cas1_I-II-III; cd09634 456827002004 CRISPR/Cas system-associated protein Cas2; Region: Cas2_I_II_III; cd09725 456827002005 poly-gamma-glutamate synthase PgsB/CapB; Region: poly_gGlu_PgsB; TIGR04012 456827002006 poly-gamma-glutamate biosynthesis protein PgsC/CapC; Region: poly_gGlu_PgsC; TIGR04011 456827002007 NAD(P)H-dependent glycerol-3-phosphate dehydrogenase; Validated; Region: gpsA; PRK00094 456827002008 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 456827002009 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 456827002010 polycystic kidney disease I (PKD) domain; similar to other cell-surface modules, with an IG-like fold; domain probably functions as a ligand binding site in protein-protein or protein-carbohydrate interactions; a single instance of the repeat is...; Region: PKD; cl14635 456827002011 Bacterial capsule synthesis protein PGA_cap; Region: PGA_cap; smart00854 456827002012 CapA and related proteins, metallophosphatase domain; Region: MPP_CapA; cd07381 456827002013 putative active site [active] 456827002014 putative metal binding site [ion binding]; other site 456827002015 Flagellar hook capping protein; Region: FlgD; cl04347 456827002016 UGMP family protein; Validated; Region: PRK09604 456827002017 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214; cl14000 456827002018 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4856 456827002019 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 456827002020 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems...; Region: REC; cd00156 456827002021 active site 456827002022 phosphorylation site [posttranslational modification] 456827002023 intermolecular recognition site; other site 456827002024 dimerization interface [polypeptide binding]; other site 456827002025 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes...; Region: AAA; cd00009 456827002026 Walker A motif; other site 456827002027 ATP binding site [chemical binding]; other site 456827002028 Walker B motif; other site 456827002029 arginine finger; other site 456827002030 Bacterial regulatory protein, Fis family; Region: HTH_8; cl01091 456827002031 Alpha-amylase/alpha-mannosidase [Carbohydrate transport and metabolism]; Region: COG1449 456827002032 Starch synthase catalytic domain; Region: Glyco_transf_5; pfam08323 456827002033 This family is most closely related to the GT1 family of glycosyltransferases and named after YqgM in Bacillus licheniformis about which little is known. Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to...; Region: GT1_YqgM_like; cd03801 456827002034 Glycogen debranching enzyme N terminal; Region: GDE_N; pfam12439 456827002035 Glycogen debranching enzyme [Carbohydrate transport and metabolism]; Region: GDB1; COG3408 456827002036 Bacterial alpha-L-rhamnosidase; Region: Bac_rhamnosid; cl01801 456827002037 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Alanine Racemase; Region: PLPDE_III_AR; cd00430 456827002038 alanine racemase; Reviewed; Region: alr; PRK00053 456827002039 active site 456827002040 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 456827002041 dimer interface [polypeptide binding]; other site 456827002042 substrate binding site [chemical binding]; other site 456827002043 catalytic residues [active] 456827002044 NYN ribonuclease and ATPase of PhoH family domains [General function prediction only]; Region: COG1875 456827002045 PIN domain of bacterial Smg6-like homologs with PhoH-like ATPase domains; Region: PIN_PhoHL-ATPase; cd09883 456827002046 putative active site [active] 456827002047 PhoH-like protein; Region: PhoH; cl12134 456827002048 Predicted GTPase [General function prediction only]; Region: COG2403 456827002049 Ras-like GTPase superfamily. The Ras-like superfamily of small GTPases consists of several families with an extremely high degree of structural and functional similarity. The Ras superfamily is divided into at least four families in eukaryotes: the Ras...; Region: Ras_like_GTPase; cl10444 456827002050 carbamate kinase; Reviewed; Region: PRK12686 456827002051 AAK_CK: Carbamate kinase (CK) catalyzes both the ATP-phosphorylation of carbamate and carbamoyl phosphate (CP) utilization with the production of ATP from ADP and CP. Both CK (this CD) and nonhomologous CP synthetase synthesize carbamoyl phosphate, an...; Region: AAK_CK; cd04235 456827002052 putative substrate binding site [chemical binding]; other site 456827002053 nucleotide binding site [chemical binding]; other site 456827002054 nucleotide binding site [chemical binding]; other site 456827002055 homodimer interface [polypeptide binding]; other site 456827002056 Propeptide_C25; Region: Propeptide_C25; pfam08126 456827002057 Peptidase family C25; Region: Peptidase_C25; pfam01364 456827002058 S-layer domain [Cell envelope biogenesis, outer membrane]; Region: COG1361 456827002059 Golgi phosphoprotein 3 (GPP34); Region: GPP34; pfam05719 456827002060 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 456827002061 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 456827002062 SIRT5_Af1_CobB: Eukaryotic, archaeal and prokaryotic group (class3) which includes human sirtuin SIRT5, Archaeoglobus fulgidus Sir2-Af1, and E. coli CobB; and are members of the SIR2 family of proteins, silent information regulator 2 (Sir2) enzymes...; Region: SIRT5_Af1_CobB; cd01412 456827002063 NAD+ binding site [chemical binding]; other site 456827002064 substrate binding site [chemical binding]; other site 456827002065 Zn binding site [ion binding]; other site 456827002066 Peptidase family C25; Region: Peptidase_C25; pfam01364 456827002067 Cleaved Adhesin Domain; Region: Cleaved_Adhesin; pfam07675 456827002068 Flagellar hook capping protein; Region: FlgD; cl04347 456827002069 Adenine nucleotide alpha hydrolases superfamily including N type ATP PPases, ATP sulphurylases Universal Stress Response protein and electron transfer flavoprotein (ETF). The domain forms a apha/beta/apha fold which binds to Adenosine nucleotide; Region: AANH_like; cl00292 456827002070 Ligand Binding Site [chemical binding]; other site 456827002071 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 456827002072 GMP synthase; Reviewed; Region: guaA; PRK00074 456827002073 Type 1 glutamine amidotransferase (GATase1) domain found in GMP synthetase; Region: GATase1_GMP_Synthase; cd01742 456827002074 AMP/PPi binding site [chemical binding]; other site 456827002075 candidate oxyanion hole; other site 456827002076 catalytic triad [active] 456827002077 potential glutamine specificity residues [chemical binding]; other site 456827002078 The C-terminal domain of GMP synthetase. It contains two subdomains; the ATP pyrophosphatase domain which closes to the N-termial and the dimerization domain at C-terminal end. The ATP-PPase is a twisted, five-stranded parallel beta-sheet sandwiched...; Region: GMP_synthase_C; cd01997 456827002079 ATP Binding subdomain [chemical binding]; other site 456827002080 Ligand Binding sites [chemical binding]; other site 456827002081 Dimerization subdomain; other site 456827002082 3-deoxy-D-manno-octulosonic-acid transferase; Reviewed; Region: PRK05749 456827002083 3-Deoxy-D-manno-octulosonic-acid transferase (kdotransferase); Region: Glycos_transf_N; pfam04413 456827002084 Glycosyl transferases group 1; Region: Glycos_transf_1; cl12012 456827002085 Pyruvate-formate lyase-activating enzyme [Posttranslational modification, protein turnover, chaperones]; Region: PflA; COG1180 456827002086 Radical SAM superfamily. Enzymes of this family generate radicals by combining a 4Fe-4S cluster and S-adenosylmethionine (SAM) in close proximity. They are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster...; Region: Radical_SAM; cd01335 456827002087 FeS/SAM binding site; other site 456827002088 Listerrria innocua Lin0431 is similar to the N-Utilization Substance G (NusG) N terminal (NGN) insert (DII); Region: Lin0431_like; cd09911 456827002089 trimer interface [polypeptide binding]; other site 456827002090 Glycosyl transferases, related to UDP-glucuronosyltransferase [Carbohydrate transport and metabolism / Signal transduction mechanisms]; Region: COG1819 456827002091 Glycosyl transferases group 1; Region: Glycos_transf_1; cl12012 456827002092 exopolyphosphatase; Region: exo_poly_only; TIGR03706 456827002093 Ppx/GppA phosphatase family; Region: Ppx-GppA; pfam02541 456827002094 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional; Region: PRK14328 456827002095 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 456827002096 Radical SAM superfamily. Enzymes of this family generate radicals by combining a 4Fe-4S cluster and S-adenosylmethionine (SAM) in close proximity. They are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster...; Region: Radical_SAM; cd01335 456827002097 FeS/SAM binding site; other site 456827002098 YicC-like family, N-terminal region; Region: YicC_N; pfam03755 456827002099 Domain of unknown function (DUF1732); Region: DUF1732; pfam08340 456827002100 ribonuclease R; Region: RNase_R; TIGR02063 456827002101 RNB domain; Region: RNB; pfam00773 456827002102 S1_like: Ribosomal protein S1-like RNA-binding domain. Found in a wide variety of RNA-associated proteins. Originally identified in S1 ribosomal protein. This superfamily also contains the Cold Shock Domain (CSD), which is a homolog of the S1 domain...; Region: S1_like; cl09927 456827002103 RNA binding site [nucleotide binding]; other site 456827002104 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 456827002105 Prokaryotic protein of unknown function (DUF849); Region: DUF849; cl01276 456827002106 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK08665 456827002107 Ribonucleotide reductase, all-alpha domain; Region: Ribonuc_red_lgN; pfam00317 456827002108 Class II ribonucleotide reductase, dimeric form; Region: RNR_II_dimer; cd02888 456827002109 active site 456827002110 dimer interface [polypeptide binding]; other site 456827002111 effector binding site; other site 456827002112 Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL; cl09939 456827002113 TSCPD domain; Region: TSCPD; cl14834 456827002114 ApbE family; Region: ApbE; cl00643 456827002115 Uncharacterized ACR, COG1469; Region: DUF198; cl00642 456827002116 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 456827002117 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 456827002118 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 456827002119 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 456827002120 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 456827002121 FGGY family of carbohydrate kinases, N-terminal domain; Region: FGGY_N; cl09121 456827002122 histidinol-phosphatase; Provisional; Region: PRK05588 456827002123 DNA polymerase alpha chain like domain; Region: POLIIIAc; smart00481 456827002124 putative iron-only hydrogenase system regulator; Region: hyd_TM1266; TIGR03959 456827002125 thiamine biosynthesis protein ThiH; Reviewed; Region: thiH; PRK09613 456827002126 Radical SAM superfamily. Enzymes of this family generate radicals by combining a 4Fe-4S cluster and S-adenosylmethionine (SAM) in close proximity. They are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster...; Region: Radical_SAM; cl14056 456827002127 Biotin and Thiamin Synthesis associated domain; Region: BATS; cl06149 456827002128 ExsB is a transcription regulator related protein. It is a subfamily of a Adenosine nucleotide binding superfamily of proteins. This protein family is represented by a single member in nearly every completed large (> 1000 genes) prokaryotic genome. In...; Region: ExsB; cd01995 456827002129 Ligand Binding Site [chemical binding]; other site 456827002130 Asparaginase (amidohydrolase): Asparaginases are tetrameric enzymes that catalyze the hydrolysis of asparagine to aspartic acid and ammonia. In bacteria, there are two classes of amidohydrolases, one highly specific for asparagine and localised to the...; Region: Asparaginase; cl00216 456827002131 active site/substrate binding site [active] 456827002132 tetramer interface [polypeptide binding]; other site 456827002133 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 456827002134 This family is most closely related to the GT1 family of glycosyltransferases. ORF704 in E. coli has been shown to be involved in the biosynthesis of O-specific mannose homopolysaccharides; Region: GT1_ecORF704_like; cd03822 456827002135 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 456827002136 Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. The acceptor molecule can be a lipid, a protein, a heterocyclic compound, or another carbohydrate...; Region: Glycosyltransferase_GTB_type; cl10013 456827002137 PASTA domain of bacterial serine/threonine kinase pknB-like proteins. PknB is a member of a group of related transmembrane sensor kinases present in many gram positive bacteria, which has been shown to regulate cell shape in Mycobacterium tubercolosis...; Region: PASTA_pknB; cd06577 456827002138 PASTA domain of bacterial serine/threonine kinase pknB-like proteins. PknB is a member of a group of related transmembrane sensor kinases present in many gram positive bacteria, which has been shown to regulate cell shape in Mycobacterium tubercolosis...; Region: PASTA_pknB; cd06577 456827002139 16S rRNA methyltransferase B; Provisional; Region: PRK14902 456827002140 RNA binding domain of NusB (N protein-Utilization Substance B) and Sun (also known as RrmB or Fmu) proteins. This family includes two orthologous groups exemplified by the transcription termination factor NusB and the N-terminal domain of the rRNA-...; Region: NusB_Sun; cl00223 456827002141 putative RNA binding site [nucleotide binding]; other site 456827002142 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy)...; Region: AdoMet_MTases; cd02440 456827002143 S-adenosylmethionine binding site [chemical binding]; other site 456827002144 Holliday junction DNA helicase RuvA; Reviewed; Region: ruvA; PRK00116 456827002145 RuvA N terminal domain; Region: RuvA_N; pfam01330 456827002146 Holliday junction resolvases (HJRs) are endonucleases that specifically resolve Holliday junction DNA intermediates during homologous recombination. HJR's occur in archaea, bacteria, and in the mitochondria of certain fungi, however this CD includes...; Region: RuvC_resolvase; cd00529 456827002147 active site 456827002148 putative DNA-binding cleft [nucleotide binding]; other site 456827002149 dimer interface [polypeptide binding]; other site 456827002150 Domain of unknown function DUF28; Region: DUF28; cl00361 456827002151 Elongation factor G (EF-G) subfamily. Translocation is mediated by EF-G (also called translocase). The structure of EF-G closely resembles that of the complex between EF-Tu and tRNA. This is an example of molecular mimicry; a protein domain evolved...; Region: EF-G_bact; cd04170 456827002152 elongation factor G; Reviewed; Region: PRK12740 456827002153 G1 box; other site 456827002154 putative GEF interaction site [polypeptide binding]; other site 456827002155 GTP/Mg2+ binding site [chemical binding]; other site 456827002156 Switch I region; other site 456827002157 G2 box; other site 456827002158 G3 box; other site 456827002159 Switch II region; other site 456827002160 G4 box; other site 456827002161 G5 box; other site 456827002162 EFG_mtEFG_II: this subfamily represents the domain II of elongation factor G (EF-G) in bacteria and, the C-terminus of mitochondrial Elongation factor G1 (mtEFG1) and G2 (mtEFG2)_like proteins found in eukaryotes. During the process of peptide...; Region: EFG_mtEFG_II; cd04088 456827002163 EFG_mtEFG1_IV: domains similar to domain IV of the bacterial translational elongation factor (EF) EF-G. Included in this group is a domain of mitochondrial Elongation factor G1 (mtEFG1) proteins homologous to domain IV of EF-G. Eukaryotic cells harbor...; Region: EFG_mtEFG1_IV; cd01434 456827002164 EFG_mtEFG_C: domains similar to the C-terminal domain of the bacterial translational elongation factor (EF) EF-G. Included in this group is the C-terminus of mitochondrial Elongation factor G1 (mtEFG1) and G2 (mtEFG2) proteins. Eukaryotic cells harbor...; Region: EFG_mtEFG_C; cd03713 456827002165 Ribosomal protein S20; Region: Ribosomal_S20p; cl00384 456827002166 Transglycosylase; Region: Transgly; cl07896 456827002167 Protein of unknown function (DUF2851); Region: DUF2851; pfam11013 456827002168 N-terminal putative catalytic domain of uncharacterized HKD family nucleases fused to putative helicases from the Snf2-like family; Region: PLDc_N_Snf2_like; cd09178 456827002169 putative homodimer interface [polypeptide binding]; other site 456827002170 putative active site [active] 456827002171 catalytic site [active] 456827002172 Superfamily II DNA/RNA helicases, SNF2 family [Transcription / DNA replication, recombination, and repair]; Region: HepA; COG0553 456827002173 DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region; Region: DEXDc; cd00046 456827002174 ATP binding site [chemical binding]; other site 456827002175 putative Mg++ binding site [ion binding]; other site 456827002176 Helicase superfamily c-terminal domain; associated with DEXDc-, DEAD-, and DEAH-box proteins, yeast initiation factor 4A, Ski2p, and Hepatitis C virus NS3 helicases; this domain is found in a wide variety of helicases and helicase related proteins; may...; Region: HELICc; cd00079 456827002177 nucleotide binding region [chemical binding]; other site 456827002178 ATP-binding site [chemical binding]; other site 456827002179 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy)...; Region: AdoMet_MTases; cl12011 456827002180 Type II restriction enzyme, methylase subunits [Defense mechanisms]; Region: COG1002 456827002181 TaqI-like C-terminal specificity domain; Region: TaqI_C; pfam12950 456827002182 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 456827002183 Protein of unknown function (DUF1393); Region: DUF1393; cl01942 456827002184 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 456827002185 ABC transporter signature motif; other site 456827002186 Walker B; other site 456827002187 D-loop; other site 456827002188 Nucleoside deaminases include adenosine, guanine and cytosine deaminases. These enzymes are Zn dependent and catalyze the deamination of nucleosides. The zinc ion in the active site plays a central role in the proposed catalytic mechanism, activating a...; Region: nucleoside_deaminase; cd01285 456827002189 nucleoside/Zn binding site; other site 456827002190 dimer interface [polypeptide binding]; other site 456827002191 catalytic motif [active] 456827002192 periplasmic folding chaperone; Provisional; Region: PRK10788 456827002193 DNA mismatch repair protein MutS; Provisional; Region: PRK05399 456827002194 MutS domain I; Region: MutS_I; pfam01624 456827002195 MutS domain II; Region: MutS_II; pfam05188 456827002196 MutS family domain IV; Region: MutS_IV; pfam05190 456827002197 MutS1 homolog in eukaryotes. The MutS protein initiates DNA mismatch repair by recognizing mispaired and unpaired bases embedded in duplex DNA and activating endo- and exonucleases to remove the mismatch. Members of the MutS family possess C-terminal...; Region: ABC_MutS1; cd03284 456827002198 Walker A/P-loop; other site 456827002199 ATP binding site [chemical binding]; other site 456827002200 Q-loop/lid; other site 456827002201 ABC transporter signature motif; other site 456827002202 Walker B; other site 456827002203 D-loop; other site 456827002204 H-loop/switch region; other site 456827002205 outer membrane assembly lipoprotein YfiO; Region: OM_YfiO; TIGR03302 456827002206 Sporulation related domain; Region: SPOR; cl10051 456827002207 transcription termination factor Rho; Provisional; Region: rho; PRK09376 456827002208 Rho_CSD: Rho protein cold-shock domain (CSD). Rho protein is a transcription termination factor in most bacteria. In bacteria, there are two distinct mechanisms for mRNA transcription termination. In intrinsic termination, RNA polymerase and nascent...; Region: Rho_CSD; cd04459 456827002209 RNA binding site [nucleotide binding]; other site 456827002210 Transcription termination factor rho is a bacterial ATP-dependent RNA/DNA helicase. It is a homohexamer. Each monomer consists of an N-terminal domain of the OB fold, which is responsible for binding to cysteine rich nucleotides. This alignment is of...; Region: rho_factor; cd01128 456827002211 multimer interface [polypeptide binding]; other site 456827002212 Walker A motif; other site 456827002213 ATP binding site [chemical binding]; other site 456827002214 Walker B motif; other site 456827002215 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy)...; Region: AdoMet_MTases; cd02440 456827002216 S-adenosylmethionine binding site [chemical binding]; other site 456827002217 Patatins and Phospholipases; Region: Patatin_and_cPLA2; cl11396 456827002218 nucleophile elbow; other site 456827002219 ABC-type Na+ transport system, ATPase component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatA; COG4555 456827002220 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 456827002221 Walker A/P-loop; other site 456827002222 ATP binding site [chemical binding]; other site 456827002223 Q-loop/lid; other site 456827002224 ABC transporter signature motif; other site 456827002225 Walker B; other site 456827002226 D-loop; other site 456827002227 H-loop/switch region; other site 456827002228 ABC-type Na+ efflux pump, permease component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatB; COG1668 456827002229 ABC-2 type transporter; Region: ABC2_membrane; cl11417 456827002230 CAAX amino terminal protease self- immunity; Region: Abi; cl00558 456827002231 glucosamine--fructose-6-phosphate aminotransferase; Reviewed; Region: PRK00331 456827002232 Glutamine amidotransferases class-II (Gn-AT)_GFAT-type. This domain is found at the N-terminus of glucosamine-6P synthase (GlmS, or GFAT in humans). The glutaminase domain catalyzes amide nitrogen transfer from glutamine to the appropriate substrate...; Region: GFAT; cd00714 456827002233 glutaminase active site [active] 456827002234 SIS (Sugar ISomerase) domain repeat 1 found in Glucosamine 6-phosphate synthase (GlmS) and Glucosamine-6-phosphate deaminase (GlmD). The SIS domain is found in many phosphosugar isomerases and phosphosugar binding proteins. GlmS contains a N-terminal...; Region: SIS_GlmS_GlmD_1; cd05008 456827002235 dimer interface [polypeptide binding]; other site 456827002236 active site 456827002237 SIS (Sugar ISomerase) domain repeat 2 found in Glucosamine 6-phosphate synthase (GlmS) and Glucosamine-6-phosphate deaminase (GlmD). The SIS domain is found in many phosphosugar isomerases and phosphosugar binding proteins. GlmS contains a N-terminal...; Region: SIS_GlmS_GlmD_2; cd05009 456827002238 dimer interface [polypeptide binding]; other site 456827002239 active site 456827002240 YhcR_OBF_like: A subfamily of OB-fold domains similar to the OB folds of Bacillus subtilis YhcR. YhcR is a sugar-nonspecific nuclease, which is active in the presence of Ca2+ and Mn2+. It cleaves RNA endonucleolytically, producing 3'-monophosphate...; Region: YhcR_OBF_like; cd04486 456827002241 generic binding surface I; other site 456827002242 generic binding surface II; other site 456827002243 7-keto-8-aminopelargonate synthetase and related enzymes [Coenzyme metabolism]; Region: BioF; COG0156 456827002244 KBL_like; this family belongs to the pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD corresponds to serine palmitoyltransferase (SPT), 5-aminolevulinate synthase (ALAS), 8-amino-7-...; Region: KBL_like; cd06454 456827002245 substrate-cofactor binding pocket; other site 456827002246 pyridoxal 5'-phosphate binding site [chemical binding]; other site 456827002247 catalytic residue [active] 456827002248 Predicted methyltransferases [General function prediction only]; Region: COG0313 456827002249 Tetrapyrrole (Corrin/Porphyrin) Methylases; Region: TP_methylase; cl00304 456827002250 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 456827002251 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others...; Region: HAD_like; cl11391 456827002252 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 456827002253 Malate:quinone oxidoreductase (Mqo); Region: Mqo; cl14881 456827002254 sarcosine oxidase, alpha subunit family, heterotetrameric form; Region: soxA; TIGR01372 456827002255 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; cl14644 456827002256 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; cl14644 456827002257 Fe-S-cluster-containing hydrogenase components 2 [Energy production and conversion]; Region: HycB; COG1142 456827002258 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; cl01093 456827002259 Predicted permeases [General function prediction only]; Region: COG0795; cl12074 456827002260 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 456827002261 Predicted permeases [General function prediction only]; Region: COG0795; cl12074 456827002262 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 456827002263 NAD-dependent DNA ligase LigA; Validated; Region: ligA; PRK07956 456827002264 NAD+ dependent DNA ligase adenylation domain. DNA ligases catalyze the crucial step of joining the breaks in duplex DNA during DNA replication, repair and recombination, utilizing either ATP or NAD(+) as a cofactor, but using the same basic reaction...; Region: LIGANc; cd00114 456827002265 nucleotide binding pocket [chemical binding]; other site 456827002266 K-X-D-G motif; other site 456827002267 catalytic site [active] 456827002268 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 456827002269 NAD-dependent DNA ligase C4 zinc finger domain; Region: DNA_ligase_ZBD; pfam03119 456827002270 Helix-hairpin-helix motif; Region: HHH_2; pfam12826 456827002271 Breast Cancer Suppressor Protein (BRCA1), carboxy-terminal domain. The BRCT domain is found within many DNA damage repair and cell cycle checkpoint proteins. The unique diversity of this domain superfamily allows BRCT modules to interact forming homo/...; Region: BRCT; cd00027 456827002272 Dimer interface [polypeptide binding]; other site 456827002273 BRCT sequence motif; other site 456827002274 Predicted amidohydrolase [General function prediction only]; Region: COG0388 456827002275 Pyrococcus horikoshii Ph0642 and related proteins, members of the nitrilase superfamily (putative class 13 nitrilases); Region: Ph0642_like; cd07577 456827002276 putative active site [active] 456827002277 catalytic triad [active] 456827002278 putative tetramer interface [polypeptide binding]; other site 456827002279 dimer interface [polypeptide binding]; other site 456827002280 hydrogenase maturation GTPase HydF; Region: GTP_HydF; TIGR03918 456827002281 Era (E. coli Ras-like protein)-like. This family includes several distinct subfamilies (TrmE/ThdF, FeoB, YihA (EngG), Era, and EngA/YfgK) that generally show sequence conservation in the region between the Walker A and B motifs (G1 and G3 box motifs)...; Region: Era_like; cd00880 456827002282 G1 box; other site 456827002283 GTP/Mg2+ binding site [chemical binding]; other site 456827002284 Switch I region; other site 456827002285 G2 box; other site 456827002286 Switch II region; other site 456827002287 G3 box; other site 456827002288 G4 box; other site 456827002289 G5 box; other site 456827002290 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 456827002291 The excision repair protein UvrA domain I; Nucleotide excision repair in eubacteria is a process that repairs DNA damage by the removal of a 12-13-mer oligonucleotide containing the lesion. Recognition and cleavage of the damaged DNA is a multistep...; Region: ABC_UvrA_I; cd03270 456827002292 The excision repair protein UvrA domain I; Nucleotide excision repair in eubacteria is a process that repairs DNA damage by the removal of a 12-13-mer oligonucleotide containing the lesion. Recognition and cleavage of the damaged DNA is a multistep...; Region: ABC_UvrA_I; cd03270 456827002293 The excision repair protein UvrA domain II; Nucleotide excision repair in eubacteria is a process that repairs DNA damage by the removal of a 12-13-mer oligonucleotide containing the lesion. Recognition and cleavage of the damaged DNA is a multistep...; Region: ABC_UvrA_II; cd03271 456827002294 E or 'early' set of sugar utilizing enzymes which may be related to the immunoglobulin and/or fibronectin type III superfamilies. These domains are associated with different types of catalytic domains at either the N-terminal or C-terminal end; Region: E_set; cl09101 456827002295 Glycosidases [Carbohydrate transport and metabolism]; Region: AmyA; COG0366 456827002296 Alpha amylase, catalytic domain; Region: Alpha-amylase; cl07893 456827002297 Integration host factor (IHF) and HU are small heterodimeric members of the DNABII protein family that bind and bend DNA, functioning as architectural factors in many cellular processes including transcription, site-specific recombination, and higher-...; Region: HU_IHF; cd00591 456827002298 IHF dimer interface [polypeptide binding]; other site 456827002299 IHF - DNA interface [nucleotide binding]; other site 456827002300 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi...; Region: TPR; cl02429 456827002301 binding surface 456827002302 TPR motif; other site 456827002303 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi...; Region: TPR; cd00189 456827002304 binding surface 456827002305 TPR motif; other site 456827002306 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi...; Region: TPR; cd00189 456827002307 binding surface 456827002308 TPR motif; other site 456827002309 Peptidase S24 LexA-like proteins are involved in the SOS response leading to the repair of single-stranded DNA within the bacterial cell. This family includes: the lambda repressor CI/C2 family and related bacterial prophage repressor proteins; LexA (...; Region: S24_LexA-like; cd06529 456827002310 Catalytic site [active] 456827002311 Predicted permeases [General function prediction only]; Region: COG0730; cl00498 456827002312 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 456827002313 type IV pilus biogenesis/stability protein PilW; Region: type_IV_pilW; TIGR02521 456827002314 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi...; Region: TPR; cl02429 456827002315 TPR motif; other site 456827002316 binding surface 456827002317 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi...; Region: TPR; cd00189 456827002318 binding surface 456827002319 TPR motif; other site 456827002320 EamA-like transporter family; Region: EamA; cl01037 456827002321 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 456827002322 DNA Polymerase IV/Kappa; Region: PolY_Pol_IV_kappa; cd03586 456827002323 active site 456827002324 DNA polymerase IV; Validated; Region: PRK02406 456827002325 DNA binding site [nucleotide binding] 456827002326 Proteins of this family catalyze the reduction of flavin or nitrocompounds using NAD(P)H as electron donor in a obligatory two-electron transfer, utilizing FMN or FAD as cofactor. They are often found to be homodimers. Enzymes of this family are...; Region: Nitro_FMN_reductase; cl00514 456827002327 FMN binding site [chemical binding]; other site 456827002328 dimer interface [polypeptide binding]; other site 456827002329 GT_2_like_f is a subfamily of the glycosyltransferase family 2 (GT-2) with unknown function; Region: GT_2_like_f; cd04182 456827002330 metal binding site [ion binding]; metal-binding site 456827002331 Tryptophan synthase beta superfamily (fold type II); this family of pyridoxal phosphate (PLP)-dependent enzymes catalyzes beta-replacement and beta-elimination reactions. This CD corresponds to aminocyclopropane-1-carboxylate deaminase (ACCD)...; Region: Trp-synth-beta_II; cl00342 456827002332 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 456827002333 Propeptide_C25; Region: Propeptide_C25; pfam08126 456827002334 Peptidase family C25; Region: Peptidase_C25; pfam01364 456827002335 putative carboxyl-terminal-processing protease, deltaproteobacterial; Region: prc_long_Delta; TIGR03900 456827002336 Flagellar hook capping protein; Region: FlgD; cl04347 456827002337 Propeptide_C25; Region: Propeptide_C25; pfam08126 456827002338 Peptidase family C25; Region: Peptidase_C25; pfam01364 456827002339 putative carboxyl-terminal-processing protease, deltaproteobacterial; Region: prc_long_Delta; TIGR03900 456827002340 flagellar basal body rod modification protein; Reviewed; Region: flgD; PRK06655 456827002341 Dephospho-CoA kinase [Coenzyme metabolism]; Region: CoaE; COG0237 456827002342 Dephospho-coenzyme A kinase (DPCK, EC 2.7.1.24) catalyzes the phosphorylation of dephosphocoenzyme A (dCoA) to yield CoA, which is the final step in CoA biosynthesis; Region: DPCK; cd02022 456827002343 CoA-binding site [chemical binding]; other site 456827002344 ATP-binding [chemical binding]; other site 456827002345 Uncharacterized conserved protein [Function unknown]; Region: COG1624 456827002346 DisA bacterial checkpoint controller nucleotide-binding; Region: DisA_N; pfam02457 456827002347 dihydropteroate synthase; Region: DHPS; TIGR01496 456827002348 DHPS subgroup of Pterin binding enzymes. DHPS (dihydropteroate synthase), a functional homodimer, catalyzes the condensation of p-aminobenzoic acid (pABA) in the de novo biosynthesis of folate, which is an essential cofactor in both nucleic acid and...; Region: DHPS; cd00739 456827002349 substrate binding pocket [chemical binding]; other site 456827002350 dimer interface [polypeptide binding]; other site 456827002351 inhibitor binding site; inhibition site 456827002352 Biopolymer transport protein ExbD/TolR; Region: ExbD; cl00537 456827002353 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 456827002354 Aspartate aminotransferase (AAT) superfamily (fold type I) of pyridoxal phosphate (PLP)-dependent enzymes. PLP combines with an alpha-amino acid to form a compound called a Schiff base or aldimine intermediate, which depending on the reaction, is the...; Region: AAT_I; cl00321 456827002355 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 456827002356 catalytic residue [active] 456827002357 Nucleotide binding protein Maf. Maf has been implicated in inhibition of septum formation in eukaryotes, bacteria and archaea, but homologs in B.subtilis and S.cerevisiae are nonessential for cell division. Maf has been predicted to be a nucleotide- or...; Region: Maf; cd00555 456827002358 active site 456827002359 dimer interface [polypeptide binding]; other site 456827002360 Superfamily of metallo-dependent hydrolases (also called amidohydrolase superfamily) is a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the members have...; Region: metallo-dependent_hydrolases; cl00281 456827002361 YtcJ_like metal dependent amidohydrolases. YtcJ is a Bacillus subtilis ORF of unknown function. The Arabidopsis homolog LAF3 has been identified as a factor required for photochrome A signalling; Region: YtcJ_like; cd01300 456827002362 active site 456827002363 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 456827002364 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 456827002365 HIGH motif; other site 456827002366 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 456827002367 active site 456827002368 KMSKS motif; other site 456827002369 Peptidase M55, D-aminopeptidase dipeptide-binding protein family; Region: DAP_dppA_2; cd08769 456827002370 SxDxEG motif; other site 456827002371 putative active site [active] 456827002372 putative metal binding site [ion binding]; other site 456827002373 Indigoidine synthase A like protein; Region: Indigoidine_A; cl00983 456827002374 Rare lipoprotein A (RlpA)-like double-psi beta-barrel; Region: DPBB_1; cl04011 456827002375 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 456827002376 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 456827002377 2-ketoisovalerate ferredoxin reductase; Validated; Region: PRK07119 456827002378 Pyrimidine (PYR) binding domain of pyruvate ferredoxin oxidoreductase (PFOR), indolepyruvate ferredoxin oxidoreductase alpha subunit (IOR-alpha), and related proteins; Region: TPP_PYR_PFOR_IOR-alpha_like; cd07034 456827002379 dimer interface [polypeptide binding]; other site 456827002380 PYR/PP interface [polypeptide binding]; other site 456827002381 TPP binding site [chemical binding]; other site 456827002382 substrate binding site [chemical binding]; other site 456827002383 Thiamine pyrophosphate (TPP family), 2-oxoglutarate ferredoxin oxidoreductase (OGFOR) subfamily, TPP-binding module; OGFOR catalyzes the oxidative decarboxylation of 2-oxo-acids, with ferredoxin acting as an electron acceptor. In the TCA cycle, OGFOR...; Region: TPP_OGFOR; cd03375 456827002384 TPP-binding site [chemical binding]; other site 456827002385 2-oxoglutarate ferredoxin oxidoreductase subunit gamma; Validated; Region: PRK08537 456827002386 Pyruvate ferredoxin/flavodoxin oxidoreductase; Region: POR; cl00546 456827002387 Phosphoribosyl transferase domain; Region: Pribosyltran; cl00309 456827002388 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy)...; Region: AdoMet_MTases; cl12011 456827002389 bacterial Ribonuclease HII-like; Region: RNase_HII_bacteria_HII_like; cd07182 456827002390 RNA/DNA hybrid binding site [nucleotide binding]; other site 456827002391 active site 456827002392 Flagellar hook capping protein; Region: FlgD; cl04347 456827002393 preprotein translocase subunit SecF; Reviewed; Region: secF; PRK13022 456827002394 Protein export membrane protein; Region: SecD_SecF; cl14618 456827002395 preprotein translocase subunit SecD; Reviewed; Region: secD; PRK05812 456827002396 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 456827002397 Protein export membrane protein; Region: SecD_SecF; cl14618 456827002398 periplasmic folding chaperone; Provisional; Region: PRK10788 456827002399 PPIC-type PPIASE domain; Region: Rotamase; cl08278 456827002400 phosphoglucosamine mutase; Region: Arch_GlmM; TIGR03990 456827002401 The alpha-D-phosphohexomutase superfamily includes several related enzymes that catalyze a reversible intramolecular phosphoryl transfer on their sugar substrates. Members of this family include the phosphoglucomutases (PGM1 and PGM2)...; Region: phosphohexomutase; cl03757 456827002402 active site 456827002403 substrate binding site [chemical binding]; other site 456827002404 metal binding site [ion binding]; metal-binding site 456827002405 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: RssA; COG1752 456827002406 Patatin-like phospholipase domain containing protein 6, protein 7, and fungal NTE1; Region: Pat_PNPLA6_PNPLA7_NTE1_like; cd07205 456827002407 active site 456827002408 nucleophile elbow; other site 456827002409 Outer membrane protein/protective antigen OMA87 [Cell envelope biogenesis, outer membrane]; Region: COG4775 456827002410 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 456827002411 phosphoribosylformylglycinamidine synthase II; Provisional; Region: PRK01213 456827002412 PurL subunit of the formylglycinamide ribonucleotide amidotransferase (FGAR-AT), first repeat. FGAR-AT catalyzes the ATP-dependent conversion of formylglycinamide ribonucleotide (FGAR) and glutamine to formylglycinamidine ribonucleotide (FGAM), ADP...; Region: PurL_repeat1; cd02203 456827002413 dimerization interface [polypeptide binding]; other site 456827002414 ATP binding site [chemical binding]; other site 456827002415 PurL subunit of the formylglycinamide ribonucleotide amidotransferase (FGAR-AT), second repeat. FGAR-AT catalyzes the ATP-dependent conversion of formylglycinamide ribonucleotide (FGAR) and glutamine to formylglycinamidine ribonucleotide (FGAM), ADP...; Region: PurL_repeat2; cd02204 456827002416 dimerization interface [polypeptide binding]; other site 456827002417 ATP binding site [chemical binding]; other site 456827002418 yrdC domain; Region: Sua5_yciO_yrdC; cl00305 456827002419 Low molecular weight phosphatase family; Region: LMWPc; cd00115 456827002420 Active site [active] 456827002421 Membrane-bound metallopeptidase [Cell division and chromosome partitioning]; Region: COG4942 456827002422 Peptidase family M23; Region: Peptidase_M23; pfam01551 456827002423 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 456827002424 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 456827002425 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 456827002426 Walker A/P-loop; other site 456827002427 ATP binding site [chemical binding]; other site 456827002428 Q-loop/lid; other site 456827002429 ABC transporter signature motif; other site 456827002430 Walker B; other site 456827002431 D-loop; other site 456827002432 H-loop/switch region; other site 456827002433 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 456827002434 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 456827002435 Glucan exporter ATP-binding protein. In A. tumefaciens cyclic beta-1, 2-glucan must be transported into the periplasmic space to exert its action as a virluence factor. This subfamily belongs to the MRP-like family and is involved in drug, peptide...; Region: ABCC_Glucan_exporter_like; cd03254 456827002436 Walker A/P-loop; other site 456827002437 ATP binding site [chemical binding]; other site 456827002438 Q-loop/lid; other site 456827002439 ABC transporter signature motif; other site 456827002440 Walker B; other site 456827002441 D-loop; other site 456827002442 H-loop/switch region; other site 456827002443 poly-beta-1,6-N-acetyl-D-glucosamine N-deacetylase PgaB; Region: deacetyl_PgaB; TIGR03938 456827002444 Polysaccharide deacetylase; Region: Polysacc_deac_1; cl12061 456827002445 Polysaccharide deacetylase; Region: Polysacc_deac_1; cl12061 456827002446 Inorganic pyrophosphatase [Energy production and conversion]; Region: OVP1; cl11452 456827002447 membrane-bound proton-translocating pyrophosphatase; Validated; Region: hppA; PRK00733 456827002448 glycine cleavage system aminomethyltransferase T; Reviewed; Region: gcvT; PRK00389 456827002449 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 456827002450 2,3,4,5-tetrahydropyridine-2,6-carboxylate N-succinyltransferase; Provisional; Region: dapD; PRK11830 456827002451 2,3,4,5-tetrahydropyridine-2,6-dicarboxylate (THDP) N-succinyltransferase (also called THP succinyltransferase): THDP N-succinyltransferase catalyzes the conversion of tetrahydrodipicolinate and succinyl-CoA to N-succinyltetrahydrodipicolinate and CoA...; Region: LbH_THP_succinylT; cd03350 456827002452 trimer interface [polypeptide binding]; other site 456827002453 active site 456827002454 substrate binding site [chemical binding]; other site 456827002455 CoA binding site [chemical binding]; other site 456827002456 Aspartate aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). Pyridoxal phosphate combines with an alpha-amino acid to form a compound called a Schiff base or aldimine...; Region: AAT_like; cd00609 456827002457 pyridoxal 5'-phosphate binding site [chemical binding]; other site 456827002458 homodimer interface [polypeptide binding]; other site 456827002459 catalytic residue [active] 456827002460 Predicted metal-dependent phosphoesterases (PHP family) [General function prediction only]; Region: COG0613 456827002461 DNA polymerase alpha chain like domain; Region: POLIIIAc; smart00481 456827002462 Signal peptide peptidase A (SppA) 67K type, a serine protease, has catalytic Ser-Lys dyad; Region: S49_SppA_67K_type; cd07018 456827002463 tandem repeat interface [polypeptide binding]; other site 456827002464 oligomer interface [polypeptide binding]; other site 456827002465 active site residues [active] 456827002466 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 456827002467 tandem repeat interface [polypeptide binding]; other site 456827002468 oligomer interface [polypeptide binding]; other site 456827002469 active site residues [active] 456827002470 NifU-like domain; Region: NifU; cl00484 456827002471 Domain of unknown function (DUF3332); Region: DUF3332; pfam11810 456827002472 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 456827002473 Protein export membrane protein; Region: SecD_SecF; cl14618 456827002474 Prokaryotic Cytochrome C oxidase subunit IV; Region: COX4_pro; cl01204 456827002475 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 456827002476 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 456827002477 Outer membrane efflux protein; Region: OEP; pfam02321 456827002478 Outer membrane efflux protein; Region: OEP; pfam02321 456827002479 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 456827002480 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 456827002481 Pyruvate ferredoxin/flavodoxin oxidoreductase; Region: POR; cl00546 456827002482 indolepyruvate ferredoxin oxidoreductase, alpha subunit; Region: IOR_alpha; TIGR03336 456827002483 Pyrimidine (PYR) binding domain of pyruvate ferredoxin oxidoreductase (PFOR), indolepyruvate ferredoxin oxidoreductase alpha subunit (IOR-alpha), and related proteins; Region: TPP_PYR_PFOR_IOR-alpha_like; cd07034 456827002484 dimer interface [polypeptide binding]; other site 456827002485 PYR/PP interface [polypeptide binding]; other site 456827002486 TPP binding site [chemical binding]; other site 456827002487 substrate binding site [chemical binding]; other site 456827002488 TPP-binding module; composed of proteins similar to indolepyruvate ferredoxin oxidoreductase (IOR) alpha subunit. IOR catalyzes the oxidative decarboxylation of arylpyruvates, such as indolepyruvate or phenylpyruvate, which are generated by the...; Region: TPP_IOR_alpha; cd02008 456827002489 TPP-binding site; other site 456827002490 4-alpha-glucanotransferase; Region: Glyco_hydro_77; cl00711 456827002491 DNA polymerase III, delta subunit; Region: DNA_pol3_delta; pfam06144 456827002492 DNA polymerase III, delta subunit; Region: holA; TIGR01128 456827002493 Bacitracin resistance protein BacA; Region: BacA; cl00858 456827002494 Divergent polysaccharide deacetylase; Region: Polysacc_deac_2; cl04721 456827002495 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi...; Region: TPR; cd00189 456827002496 TPR motif; other site 456827002497 binding surface 456827002498 outer membrane assembly lipoprotein YfiO; Region: OM_YfiO; TIGR03302 456827002499 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1729 456827002500 Protein kinase domain; Region: Pkinase; pfam00069 456827002501 Catalytic domain of Protein Kinases; Region: PKc; cd00180 456827002502 active site 456827002503 ATP binding site [chemical binding]; other site 456827002504 substrate binding site [chemical binding]; other site 456827002505 activation loop (A-loop); other site 456827002506 Predicted ATPase [General function prediction only]; Region: COG3899 456827002507 putative PEP-CTERM system TPR-repeat lipoprotein; Region: PEP_TPR_lipo; TIGR02917 456827002508 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 456827002509 GAF domain; Region: GAF; cl00853 456827002510 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via trans-...; Region: HisKA; cd00082 456827002511 dimer interface [polypeptide binding]; other site 456827002512 phosphorylation site [posttranslational modification] 456827002513 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 456827002514 ATP binding site [chemical binding]; other site 456827002515 Mg2+ binding site [ion binding]; other site 456827002516 G-X-G motif; other site 456827002517 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 456827002518 putative acyl-acceptor binding pocket; other site 456827002519 ATP synthase B/B' CF(0); Region: ATP-synt_B; cl07975 456827002520 Protein of unknown function (DUF2764); Region: DUF2764; pfam10962 456827002521 V-type ATP synthase subunit A; Provisional; Region: PRK04192 456827002522 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 456827002523 V/A-type ATP synthase catalytic subunit A. These ATPases couple ATP hydrolysis to the build up of a H+ gradient, but V-type ATPases do not catalyze the reverse reaction. The Vacuolar (V-type) ATPase is found in the membranes of vacuoles, the golgi...; Region: V_A-ATPase_A; cd01134 456827002524 Walker A motif/ATP binding site; other site 456827002525 Walker B motif; other site 456827002526 V-type ATP synthase subunit B; Provisional; Region: PRK02118 456827002527 V/A-type ATP synthase (non-catalytic) subunit B. These ATPases couple ATP hydrolysis to the build up of a H+ gradient, but V-type ATPases do not catalyze the reverse reaction. The Vacuolar (V-type) ATPase is found in the membranes of vacuoles, the...; Region: V_A-ATPase_B; cd01135 456827002528 Walker A motif homologous position; other site 456827002529 Walker B motif; other site 456827002530 ATP synthase subunit D; Region: ATP-synt_D; cl00613 456827002531 V-type ATP synthase subunit I; Validated; Region: PRK05771 456827002532 V-type ATP synthase subunit K; Validated; Region: PRK06558 456827002533 ATP synthase subunit C; Region: ATP-synt_C; cl00466 456827002534 ATP synthase subunit C; Region: ATP-synt_C; cl00466 456827002535 hypothetical protein; Validated; Region: PRK09039 456827002536 Predicted RNA-binding protein homologous to eukaryotic snRNP [Transcription]; Region: COG1293 456827002537 Fibronectin-binding protein A N-terminus (FbpA); Region: FbpA; pfam05833 456827002538 Predicted RNA-binding protein homologous to eukaryotic snRNP [Transcription]; Region: COG1293 456827002539 Domain of unknown function (DUF814); Region: DUF814; pfam05670 456827002540 DNA repair protein RecO; Reviewed; Region: recO; PRK00085 456827002541 Recombination protein O N terminal; Region: RecO_N; pfam11967 456827002542 Recombination protein O C terminal; Region: RecO_C; pfam02565 456827002543 Protein of unknown function, DUF488; Region: DUF488; cl01246 456827002544 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy)...; Region: AdoMet_MTases; cl12011 456827002545 N-terminal putative catalytic domain of uncharacterized HKD family nucleases fused to putative helicases from the Snf2-like family; Region: PLDc_N_Snf2_like; cd09178 456827002546 putative homodimer interface [polypeptide binding]; other site 456827002547 putative active site [active] 456827002548 catalytic site [active] 456827002549 DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region; Region: DEXDc; cd00046 456827002550 ATP binding site [chemical binding]; other site 456827002551 putative Mg++ binding site [ion binding]; other site 456827002552 Superfamily II DNA/RNA helicases, SNF2 family [Transcription / DNA replication, recombination, and repair]; Region: HepA; COG0553 456827002553 Helicase superfamily c-terminal domain; associated with DEXDc-, DEAD-, and DEAH-box proteins, yeast initiation factor 4A, Ski2p, and Hepatitis C virus NS3 helicases; this domain is found in a wide variety of helicases and helicase related proteins; may...; Region: HELICc; cd00079 456827002554 nucleotide binding region [chemical binding]; other site 456827002555 ATP-binding site [chemical binding]; other site 456827002556 Uncharacterized conserved protein [Function unknown]; Region: COG3595 456827002557 Protein of unknown function(DUF2089); Region: DUF2089; pfam09862 456827002558 Putative small multi-drug export protein; Region: Sm_multidrug_ex; cl01024 456827002559 lipid-A-disaccharide synthase; Reviewed; Region: lpxB; PRK00025 456827002560 ipid-A-disaccharide synthase; Provisional; Region: PRK14089 456827002561 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: DUF374; Region: LPLAT_DUF374-like; cd07983 456827002562 putative acyl-acceptor binding pocket; other site 456827002563 Peptidase C10 family; Region: Peptidase_C10; pfam01640 456827002564 Cohesin domain, interaction parter of dockerin; Region: cohesin_like; cd08546 456827002565 Type II cohesin domain, interaction partner of dockerin; Region: Type_II_cohesin; cd08547 456827002566 dockerin binding interface; other site 456827002567 Aspartate alpha-decarboxylase or L-aspartate 1-decarboxylase, a pyruvoyl group-dependent decarboxylase in beta-alanine production; Region: Asp_decarbox; cd06919 456827002568 tetramerization interface [polypeptide binding]; other site 456827002569 active site 456827002570 Pantoate-beta-alanine ligase; Region: PanC; cd00560 456827002571 pantoate--beta-alanine ligase; Region: panC; TIGR00018 456827002572 active site 456827002573 ATP-binding site [chemical binding]; other site 456827002574 pantoate-binding site; other site 456827002575 HXXH motif; other site 456827002576 trigger factor; Region: tig; TIGR00115 456827002577 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 456827002578 oligomer interface [polypeptide binding]; other site 456827002579 active site residues [active] 456827002580 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 456827002581 ClpX C4-type zinc finger; Region: zf-C4_ClpX; pfam06689 456827002582 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes...; Region: AAA; cd00009 456827002583 Walker A motif; other site 456827002584 ATP binding site [chemical binding]; other site 456827002585 Walker B motif; other site 456827002586 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 456827002587 proline aminopeptidase P II; Provisional; Region: PRK10879 456827002588 Aminopeptidase P, N-terminal domain; Region: AMP_N; pfam05195 456827002589 Prolidase. E.C. 3.4.13.9. Also known as Xaa-Pro dipeptidase, X-Pro dipeptidase, proline dipeptidase., imidodipeptidase, peptidase D, gamma-peptidase. Catalyses hydrolysis of Xaa-Pro dipeptides; also acts on aminoacyl-hydroxyproline analogs. No action...; Region: Prolidase; cd01087 456827002590 active site 456827002591 Phosphopantetheine adenylyltransferase; Region: PPAT; cd02163 456827002592 active site 456827002593 (T/H)XGH motif; other site 456827002594 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 456827002595 replicative DNA helicase; Region: DnaB; TIGR00665 456827002596 DnaB helicase C terminal domain. The hexameric helicase DnaB unwinds the DNA duplex at the chromosome replication fork. Although the mechanism by which DnaB both couples ATP hydrolysis to translocation along DNA and denatures the duplex is unknown, a...; Region: DnaB_C; cd00984 456827002597 Walker A motif; other site 456827002598 ATP binding site [chemical binding]; other site 456827002599 Walker B motif; other site 456827002600 DNA binding loops [nucleotide binding] 456827002601 Domain of unknown function DUF140; Region: DUF140; cl00510 456827002602 ABC-type thiamine transport system, periplasmic component [Coenzyme metabolism]; Region: TbpA; COG4143 456827002603 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 456827002604 Thermophilic metalloprotease (M29); Region: Peptidase_M29; pfam02073 456827002605 Dihydrofolate reductase (DHFR). Reduces 7,8-dihydrofolate to 5,6,7,8-tetrahydrofolate with NADPH as a cofactor. This is an essential step in the biosynthesis of deoxythymidine phosphate since 5,6,7,8-tetrahydrofolate is required to regenerate 5,10-...; Region: DHFR; cd00209 456827002606 folate binding site [chemical binding]; other site 456827002607 NADP+ binding site [chemical binding]; other site 456827002608 ABC-type transport system involved in resistance to organic solvents, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2A; COG1127 456827002609 ABC (ATP-binding cassette) transport system involved in resistant to organic solvents; ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex...; Region: ABC_Org_Solvent_Resistant; cd03261 456827002610 Walker A/P-loop; other site 456827002611 ATP binding site [chemical binding]; other site 456827002612 Q-loop/lid; other site 456827002613 ABC transporter signature motif; other site 456827002614 Walker B; other site 456827002615 D-loop; other site 456827002616 H-loop/switch region; other site 456827002617 Sulphate Transporter and Anti-Sigma factor antagonist domain of SulP-like sulfate transporters, plays a role in the function and regulation of the transport activity, proposed general NTP binding function; Region: STAS_SulP_like_sulfate_transporter; cd07042 456827002618 Domain of unknown function DUF140; Region: DUF140; cl00510 456827002619 Protein of unknown function (DUF330); Region: DUF330; cl01135 456827002620 Protein of unknown function, DUF481; Region: DUF481; cl01213 456827002621 ABC-type transport system involved in resistance to organic solvents, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2C; COG1463 456827002622 mce related protein; Region: MCE; cl03606 456827002623 UDP-glucose pyrophosphorylase [Carbohydrate transport and metabolism]; Region: COG4284 456827002624 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cl11394 456827002625 active site 456827002626 urocanate hydratase; Provisional; Region: PRK05414 456827002627 urocanate hydratase; Region: hutU; TIGR01228 456827002628 L-cysteine desulfidase [Amino acid transport and metabolism]; Region: COG3681 456827002629 Serine dehydratase alpha chain; Region: SDH_alpha; cl12120 456827002630 Serine dehydratase alpha chain; Region: SDH_alpha; cl12120 456827002631 DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region; Region: DEXDc; cl14882 456827002632 ATP binding site [chemical binding]; other site 456827002633 putative Mg++ binding site [ion binding]; other site 456827002634 Adenine specific DNA methylase Mod [DNA replication, recombination, and repair]; Region: COG2189 456827002635 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy)...; Region: AdoMet_MTases; cl12011 456827002636 Domain of unknown function (DUF1848); Region: DUF1848; pfam08902 456827002637 Predicted membrane protein [Function unknown]; Region: COG3304 456827002638 leucyl-tRNA synthetase; Validated; Region: leuS; PRK00390 456827002639 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 456827002640 HIGH motif; other site 456827002641 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 456827002642 active site 456827002643 KMSKS motif; other site 456827002644 Anticodon-binding domain of bacterial and eukaryotic mitochondrial leucyl tRNA synthetases; Region: Anticodon_Ia_Leu_BEm; cd07958 456827002645 tRNA binding surface [nucleotide binding]; other site 456827002646 Ribosomal protein L17; Region: Ribosomal_L17; cl00356 456827002647 DNA-directed RNA polymerase subunit alpha; Provisional; Region: PRK05182 456827002648 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 456827002649 alphaNTD homodimer interface [polypeptide binding]; other site 456827002650 alphaNTD - beta interaction site [polypeptide binding]; other site 456827002651 alphaNTD - beta' interaction site [polypeptide binding]; other site 456827002652 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; cl11613 456827002653 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 456827002654 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 456827002655 S4/Hsp/ tRNA synthetase RNA-binding domain; The domain surface is populated by conserved, charged residues that define a likely RNA-binding site; Found in stress proteins, ribosomal proteins and tRNA synthetases; This may imply a hitherto unrecognized...; Region: S4; cd00165 456827002656 RNA binding surface [nucleotide binding]; other site 456827002657 Ribosomal protein S11; Region: Ribosomal_S11; cl00332 456827002658 Ribosomal protein S13/S18; Region: Ribosomal_S13; cl00331 456827002659 Ribosomal protein S13 [Translation, ribosomal structure and biogenesis]; Region: RpsM; COG0099 456827002660 Ribosomal protein L36; Region: Ribosomal_L36; cl00380 456827002661 S1_IF1: Translation Initiation Factor IF1, S1-like RNA-binding domain. IF1 contains an S1-like RNA-binding domain, which is found in a wide variety of RNA-associated proteins. Translation initiation includes a number of interrelated steps preceding the...; Region: S1_IF1; cd04451 456827002662 rRNA binding site [nucleotide binding]; other site 456827002663 predicted 30S ribosome binding site; other site 456827002664 methionine aminopeptidase; Reviewed; Region: PRK07281 456827002665 Methionine Aminopeptidase 1. E.C. 3.4.11.18. Also known as methionyl aminopeptidase and Peptidase M. Catalyzes release of N-terminal amino acids, preferentially methionine, from peptides and arylamides; Region: MetAP1; cd01086 456827002666 active site 456827002667 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 456827002668 SecY translocase; Region: SecY; pfam00344 456827002669 Ribosomal protein L18e/L15; Region: Ribosomal_L18e; cl12022 456827002670 Ribosomal protein L30, which is found in eukaryotes and prokaryotes but not in archaea, is one of the smallest ribosomal proteins with a molecular mass of about 7kDa. L30 binds the 23SrRNA as well as the 5S rRNA and is one of five ribosomal proteins...; Region: Ribosomal_L30; cd01658 456827002671 23S rRNA binding site [nucleotide binding]; other site 456827002672 30S ribosomal protein S5; Validated; Region: rpsE; PRK00550 456827002673 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 456827002674 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 456827002675 Ribosomal L18/L5e: L18 (L5e) is a ribosomal protein found in the central protuberance (CP) of the large subunit. L18 binds 5S rRNA and induces a conformational change that stimulates the binding of L5 to 5S rRNA. Association of 5S rRNA with 23S rRNA...; Region: Ribosomal_L18_L5e; cd00432 456827002676 23S rRNA interface [nucleotide binding]; other site 456827002677 L21e interface [polypeptide binding]; other site 456827002678 5S rRNA interface [nucleotide binding]; other site 456827002679 L27 interface [polypeptide binding]; other site 456827002680 L5 interface [polypeptide binding]; other site 456827002681 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 456827002682 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 456827002683 Ribosomal protein S8; Region: Ribosomal_S8; cl00330 456827002684 Ribosomal protein S14p/S29e; Region: Ribosomal_S14; cl00355 456827002685 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 456827002686 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 456827002687 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 456827002688 KOW motif; Region: KOW; cl00354 456827002689 Ribosomal protein L14p/L23e; Region: Ribosomal_L14; cl00328 456827002690 Ribosomal protein S17; Region: Ribosomal_S17; cl00351 456827002691 Ribosomal L29 protein/HIP. L29 is a protein of the large ribosomal Subunit. A homolog, called heparin/heparan sulfate interacting protein (HIP), has also been identified in mammals. L29 is located on the surface of the large ribosomal subunit, where...; Region: Ribosomal_L29_HIP; cd00427 456827002692 putative translocon interaction site; other site 456827002693 23S rRNA interface [nucleotide binding]; other site 456827002694 signal recognition particle (SRP54) interaction site; other site 456827002695 L23 interface [polypeptide binding]; other site 456827002696 trigger factor interaction site; other site 456827002697 Ribosomal_L16_L10e: L16 is an essential protein in the large ribosomal subunit of bacteria, mitochondria, and chloroplasts. Large subunits that lack L16 are defective in peptidyl transferase activity, peptidyl-tRNA hydrolysis activity, association with...; Region: Ribosomal_L16_L10e; cd01433 456827002698 23S rRNA interface [nucleotide binding]; other site 456827002699 5S rRNA interface [nucleotide binding]; other site 456827002700 putative antibiotic binding site [chemical binding]; other site 456827002701 L25 interface [polypeptide binding]; other site 456827002702 L27 interface [polypeptide binding]; other site 456827002703 ribosomal protein S3, bacterial type; Region: rpsC_bact; TIGR01009 456827002704 K homology RNA-binding (KH) domain of the prokaryotic 30S small ribosomal subunit protein S3. S3 is part of the head region of the 30S ribosomal subunit and is believed to interact with mRNA as it threads its way from the latch into the channel. The...; Region: 30S_S3_KH; cd02412 456827002705 G-X-X-G motif; other site 456827002706 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 456827002707 Ribosomal protein L22/L17e. L22 (L17 in eukaryotes) is a core protein of the large ribosomal subunit. It is the only ribosomal protein that interacts with all six domains of 23S rRNA, and is one of the proteins important for directing the proper...; Region: Ribosomal_L22; cd00336 456827002708 putative translocon binding site; other site 456827002709 protein-rRNA interface [nucleotide binding]; other site 456827002710 Ribosomal protein S19; Region: Ribosomal_S19; cl00350 456827002711 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 456827002712 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 456827002713 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 456827002714 Ribosomal protein L23; Region: Ribosomal_L23; cl00326 456827002715 Ribosomal protein L4/L1 family; Region: Ribosomal_L4; cl00325 456827002716 Ribosomal protein L3; Region: Ribosomal_L3; cl00324 456827002717 Ribosomal protein S10p/S20e; Region: Ribosomal_S10; cl00314 456827002718 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy)...; Region: AdoMet_MTases; cd02440 456827002719 S-adenosylmethionine binding site [chemical binding]; other site 456827002720 SAM-dependent methyltransferases related to tRNA (uracil-5-)-methyltransferase [Translation, ribosomal structure and biogenesis]; Region: TrmA; COG2265 456827002721 TRAM domain; Region: TRAM; cl01282 456827002722 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy)...; Region: AdoMet_MTases; cd02440 456827002723 S-adenosylmethionine binding site [chemical binding]; other site 456827002724 Peptidase family M48; Region: Peptidase_M48; cl12018 456827002725 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 456827002726 MatE; Region: MatE; pfam01554 456827002727 MatE; Region: MatE; pfam01554 456827002728 ornithine aminotransferase; Region: Orn_aminotrans; TIGR01885 456827002729 Acetyl ornithine aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to ornithine aminotransferase, acetylornithine aminotransferase...; Region: OAT_like; cd00610 456827002730 inhibitor-cofactor binding pocket; inhibition site 456827002731 pyridoxal 5'-phosphate binding site [chemical binding]; other site 456827002732 catalytic residue [active] 456827002733 GTPase Era; Reviewed; Region: era; PRK00089 456827002734 Era subfamily. Era (E. coli Ras-like protein) is a multifunctional GTPase found in all bacteria except some eubacteria. It binds to the 16S ribosomal RNA (rRNA) of the 30S subunit and appears to play a role in the assembly of the 30S subunit...; Region: Era; cd04163 456827002735 G1 box; other site 456827002736 GTP/Mg2+ binding site [chemical binding]; other site 456827002737 Switch I region; other site 456827002738 G2 box; other site 456827002739 Switch II region; other site 456827002740 G3 box; other site 456827002741 G4 box; other site 456827002742 G5 box; other site 456827002743 K homology RNA-binding domain, type I. KH binds single-stranded RNA or DNA. It is found in a wide variety of proteins including ribosomal proteins, transcription factors and post-transcriptional modifiers of mRNA. There are two different KH domains...; Region: KH-I; cl00098 456827002744 Conserved hypothetical protein 2217 (DUF2460); Region: DUF2460; cl02268 456827002745 Bordetella pertussis Bvg accessory factor family; Region: Bvg_acc_factor; cl09130 456827002746 CHASE2 domain; Region: CHASE2; cl01732 456827002747 cyclase homology domain; Region: CHD; cd07302 456827002748 nucleotidyl binding site; other site 456827002749 metal binding site [ion binding]; metal-binding site 456827002750 dimer interface [polypeptide binding]; other site 456827002751 FecR protein; Region: FecR; pfam04773 456827002752 poly-beta-1,6 N-acetyl-D-glucosamine export porin PgaA; Region: PGA_TPR_OMP; TIGR03939 456827002753 NHL repeat; Region: NHL; pfam01436 456827002754 putative PEP-CTERM system TPR-repeat lipoprotein; Region: PEP_TPR_lipo; TIGR02917 456827002755 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi...; Region: TPR; cd00189 456827002756 binding surface 456827002757 TPR motif; other site 456827002758 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi...; Region: TPR; cd00189 456827002759 TPR motif; other site 456827002760 binding surface 456827002761 Delta(1)-pyrroline-5-carboxylate dehydrogenase, ALDH families 4 and 17; Region: ALDH_F4-17_P5CDH; cd07123 456827002762 1-pyrroline-5-carboxylate dehydrogenase; Provisional; Region: PRK03137 456827002763 Glutamate binding site [chemical binding]; other site 456827002764 NAD binding site [chemical binding]; other site 456827002765 catalytic residues [active] 456827002766 Membrane transport protein; Region: Mem_trans; cl09117 456827002767 Malate/L-lactate dehydrogenase; Region: Ldh_2; cl00900 456827002768 Diaminopimelate decarboxylase [Amino acid transport and metabolism]; Region: LysA; COG0019 456827002769 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Ornithine Decarboxylase; Region: PLPDE_III_ODC; cd00622 456827002770 dimer interface [polypeptide binding]; other site 456827002771 active site 456827002772 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 456827002773 catalytic residues [active] 456827002774 substrate binding site [chemical binding]; other site 456827002775 tRNA methyl transferase; Region: tRNA_Me_trans; pfam03054 456827002776 tRNA methyl transferase. This family represents tRNA(5-methylaminomethyl-2-thiouridine)-methyltransferase which is involved in the biosynthesis of the modified nucleoside 5-methylaminomethyl-2-thiouridine present in the wobble position of some tRNAs...; Region: tRNA_Me_trans; cd01998 456827002777 Ligand Binding Site [chemical binding]; other site 456827002778 7-keto-8-aminopelargonate synthetase and related enzymes [Coenzyme metabolism]; Region: BioF; COG0156 456827002779 KBL_like; this family belongs to the pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD corresponds to serine palmitoyltransferase (SPT), 5-aminolevulinate synthase (ALAS), 8-amino-7-...; Region: KBL_like; cd06454 456827002780 substrate-cofactor binding pocket; other site 456827002781 pyridoxal 5'-phosphate binding site [chemical binding]; other site 456827002782 catalytic residue [active] 456827002783 Domain of unknown function DUF20; Region: UPF0118; cl00465 456827002784 effector domain of the CAP family of transcription factors; members include CAP (or cAMP receptor protein (CRP)), which binds cAMP, FNR (fumarate and nitrate reduction), which uses an iron-sulfur cluster to sense oxygen) and CooA, a heme containing CO...; Region: CAP_ED; cd00038 456827002785 ligand binding site [chemical binding]; other site 456827002786 flexible hinge region; other site 456827002787 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy)...; Region: AdoMet_MTases; cl12011 456827002788 Survival protein SurE; Region: SurE; cl00448 456827002789 Preprotein translocase SecG subunit; Region: SecG; cl09123 456827002790 SCP_bacterial: SCP-like extracellular protein domain, as found in bacteria and archaea. The wider family of SCP containing proteins includes plant pathogenesis-related protein 1 (PR-1), CRISPs, mammalian cysteine-rich secretory proteins, and allergen 5...; Region: SCP_bacterial; cd05379 456827002791 Methanothermobacter thermautotrophicus Mth212-like subfamily of the ExoIII family purinic/apyrimidinic (AP) endonucleases; Region: Mth212-like_AP-endo; cd09085 456827002792 active site 456827002793 phosphate binding site A [ion binding]; other site 456827002794 putative catalytic site [active] 456827002795 DNA binding site [nucleotide binding] 456827002796 metal binding site A [ion binding]; metal-binding site 456827002797 putative AP binding site [nucleotide binding]; other site 456827002798 putative metal binding site B [ion binding]; other site 456827002799 phosphate binding site B [ion binding]; other site 456827002800 OstA-like protein; Region: OstA; cl00844 456827002801 Organic solvent tolerance protein OstA [Cell envelope biogenesis, outer membrane]; Region: Imp; COG1452 456827002802 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others...; Region: HAD_like; cd01427 456827002803 active site 456827002804 motif I; other site 456827002805 motif II; other site 456827002806 rRNA methylase, putative, group 3; Region: rRNA_methyl_3; TIGR00186 456827002807 SpoU rRNA Methylase family; Region: SpoU_methylase; cl00362 456827002808 Xanthine and CO dehydrogenases maturation factor, XdhC/CoxF family [Posttranslational modification, protein turnover, chaperones]; Region: XdhC; COG1975 456827002809 XdhC and CoxI family; Region: XdhC_CoxI; pfam02625 456827002810 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cd00207 456827002811 bidirectional hydrogenase complex protein HoxU; Validated; Region: PRK07569 456827002812 catalytic loop [active] 456827002813 iron binding site [ion binding]; other site 456827002814 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; pfam10588 456827002815 The HCP family of iron-sulfur proteins includes hybrid cluster protein (HCP), acetyl-CoA synthase (ACS), and carbon monoxide dehydrogenase (CODH), all of which contain [Fe4-S4] metal clusters at their active sites. These proteins have a conserved alpha-; Region: HCP_like; cl14655 456827002816 hydrogenase, Fe-only; Region: Fe_only_hydrog; TIGR02512 456827002817 Iron only hydrogenase large subunit, C-terminal domain; Region: Fe_hyd_lg_C; pfam02906 456827002818 Iron hydrogenase small subunit; Region: Fe_hyd_SSU; pfam02256 456827002819 Thioredoxin (TRX)-like [2Fe-2S] Ferredoxin (Fd) family; composed of [2Fe-2S] Fds with a TRX fold (TRX-like Fds) and proteins containing domains similar to TRX-like Fd including formate dehydrogenases, NAD-reducing hydrogenases and the subunit E of NADH:; Region: TRX_Fd_family; cd02980 456827002820 dimer interface [polypeptide binding]; other site 456827002821 [2Fe-2S] cluster binding site [ion binding]; other site 456827002822 NADH:ubiquinone oxidoreductase, NADH-binding (51 kD) subunit [Energy production and conversion]; Region: NuoF; COG1894 456827002823 Respiratory-chain NADH dehydrogenase 51 Kd subunit; Region: Complex1_51K; pfam01512 456827002824 SLBB domain; Region: SLBB; pfam10531 456827002825 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; pfam10589 456827002826 NADH-quinone oxidoreductase, E subunit; Region: nuoE_fam; TIGR01958 456827002827 TRX-like [2Fe-2S] Ferredoxin (Fd) family, NADH:ubiquinone oxidoreductase (Nuo) subunit E subfamily; Nuo, also called respiratory chain Complex 1, is the entry point for electrons into the respiratory chains of bacteria and the mitochondria of...; Region: TRX_Fd_NuoE; cd03064 456827002828 putative dimer interface [polypeptide binding]; other site 456827002829 [2Fe-2S] cluster binding site [ion binding]; other site 456827002830 Thioredoxin (TRX)-like [2Fe-2S] Ferredoxin (Fd) family; composed of [2Fe-2S] Fds with a TRX fold (TRX-like Fds) and proteins containing domains similar to TRX-like Fd including formate dehydrogenases, NAD-reducing hydrogenases and the subunit E of NADH:; Region: TRX_Fd_family; cd02980 456827002831 dimer interface [polypeptide binding]; other site 456827002832 [2Fe-2S] cluster binding site [ion binding]; other site 456827002833 NADH:ubiquinone oxidoreductase, NADH-binding (51 kD) subunit [Energy production and conversion]; Region: NuoF; COG1894 456827002834 Respiratory-chain NADH dehydrogenase 51 Kd subunit; Region: Complex1_51K; pfam01512 456827002835 SLBB domain; Region: SLBB; pfam10531 456827002836 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; pfam10589 456827002837 4Fe-4S binding domain; Region: Fer4; cl02805 456827002838 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 456827002839 4Fe-4S binding domain; Region: Fer4; cl02805 456827002840 Thioredoxin (TRX)-like [2Fe-2S] Ferredoxin (Fd) family; composed of [2Fe-2S] Fds with a TRX fold (TRX-like Fds) and proteins containing domains similar to TRX-like Fd including formate dehydrogenases, NAD-reducing hydrogenases and the subunit E of NADH:; Region: TRX_Fd_family; cd02980 456827002841 dimer interface [polypeptide binding]; other site 456827002842 [2Fe-2S] cluster binding site [ion binding]; other site 456827002843 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 456827002844 ATP binding site [chemical binding]; other site 456827002845 Mg2+ binding site [ion binding]; other site 456827002846 G-X-G motif; other site 456827002847 NADH-quinone oxidoreductase, E subunit; Region: nuoE_fam; TIGR01958 456827002848 TRX-like [2Fe-2S] Ferredoxin (Fd) family, NADH:ubiquinone oxidoreductase (Nuo) subunit E subfamily; Nuo, also called respiratory chain Complex 1, is the entry point for electrons into the respiratory chains of bacteria and the mitochondria of...; Region: TRX_Fd_NuoE; cd03064 456827002849 putative dimer interface [polypeptide binding]; other site 456827002850 [2Fe-2S] cluster binding site [ion binding]; other site 456827002851 PHP domain; Region: PHP; pfam02811 456827002852 DNA polymerase alpha chain like domain; Region: POLIIIAc; smart00481 456827002853 DRTGG domain; Region: DRTGG; cl12147 456827002854 hydrogenase, Fe-only; Region: Fe_only_hydrog; TIGR02512 456827002855 The HCP family of iron-sulfur proteins includes hybrid cluster protein (HCP), acetyl-CoA synthase (ACS), and carbon monoxide dehydrogenase (CODH), all of which contain [Fe4-S4] metal clusters at their active sites. These proteins have a conserved alpha-; Region: HCP_like; cl14655 456827002856 Iron only hydrogenase large subunit, C-terminal domain; Region: Fe_hyd_lg_C; pfam02906 456827002857 Putative Fe-S cluster; Region: FeS; pfam04060 456827002858 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cl00075 456827002859 DRTGG domain; Region: DRTGG; cl12147 456827002860 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 456827002861 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 456827002862 Class II Aldolase and Adducin head (N-terminal) domain. Aldolases are ubiquitous enzymes catalyzing central steps of carbohydrate metabolism. Based on enzymatic mechanisms, this superfamily has been divided into two distinct classes (Class I and II)...; Region: Aldolase_II; cl00214 456827002863 intersubunit interface [polypeptide binding]; other site 456827002864 active site 456827002865 Zn2+ binding site [ion binding]; other site 456827002866 RT_G2_intron: Reverse transcriptases (RTs) with group II intron origin. RT transcribes DNA using RNA as template. Proteins in this subfamily are found in bacterial and mitochondrial group II introns. Their most probable ancestor was a retrotransposable...; Region: RT_G2_intron; cd01651 456827002867 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 456827002868 putative active site [active] 456827002869 putative NTP binding site [chemical binding]; other site 456827002870 putative nucleic acid binding site [nucleotide binding]; other site 456827002871 HRDC domain; Region: HRDC; cl02578 456827002872 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; cl00556 456827002873 Flagellar hook capping protein; Region: FlgD; cl04347 456827002874 glutaminyl-tRNA synthetase; Provisional; Region: PRK05347 456827002875 catalytic core domain of glutaminyl-tRNA synthetase; Region: GlnRS_core; cd00807 456827002876 active site 456827002877 HIGH motif; other site 456827002878 KMSKS motif; other site 456827002879 tRNA synthetases class I (E and Q), anti-codon binding domain; Region: tRNA-synt_1c_C; pfam03950 456827002880 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 456827002881 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_e; cd04192 456827002882 DNA polymerase III, subunit gamma and tau; Region: dnaX_nterm; TIGR02397 456827002883 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes...; Region: AAA; cd00009 456827002884 Walker A motif; other site 456827002885 ATP binding site [chemical binding]; other site 456827002886 Walker B motif; other site 456827002887 arginine finger; other site 456827002888 Phosphofructokinase, a key regulatory enzyme in glycolysis, catalyzes the phosphorylation of fructose-6-phosphate to fructose-1,6-biphosphate. The members belong to PFK family that includes ATP- and pyrophosphate (PPi)- dependent phosphofructokinases...; Region: PFK; cl00204 456827002889 active site 456827002890 ADP/pyrophosphate binding site [chemical binding]; other site 456827002891 allosteric effector site; other site 456827002892 dimerization interface [polypeptide binding]; other site 456827002893 fructose-1,6-bisphosphate binding site; other site 456827002894 glutamate dehydrogenase; Provisional; Region: PRK09414 456827002895 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 456827002896 NAD(P) binding domain of glutamate dehydrogenase, subgroup 2; Region: NAD_bind_2_Glu_DH; cd05313 456827002897 NAD(P) binding site [chemical binding]; other site 456827002898 LemA family; Region: LemA; cl00742 456827002899 Mechanosensitive ion channel; Region: MS_channel; pfam00924 456827002900 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others...; Region: HAD_like; cl11391 456827002901 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 456827002902 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others...; Region: HAD_like; cd01427 456827002903 motif II; other site 456827002904 Uncharacterised protein family UPF0047; Region: UPF0047; cl00439 456827002905 Bacterial members of the UDP-N-Acetylglucosamine (GlcNAc) 2-Epimerase family are known to catalyze the reversible interconversion of UDP-GlcNAc and UDP-N-acetylmannosamine (UDP-ManNAc). The enzyme serves to produce an activated form of ManNAc residues...; Region: GT1_UDP-GlcNAc_2-Epimerase; cd03786 456827002906 active site 456827002907 homodimer interface [polypeptide binding]; other site 456827002908 Propeptide_C25; Region: Propeptide_C25; pfam08126 456827002909 Peptidase family C25; Region: Peptidase_C25; pfam01364 456827002910 Peptidase family C25, C terminal ig-like domain; Region: Peptidase_C25_C; pfam03785 456827002911 agmatine deiminase; Region: agmatine_aguA; TIGR03380 456827002912 Porphyromonas-type peptidyl-arginine deiminase; Region: PAD_porph; cl01113 456827002913 30S ribosomal protein S1; Reviewed; Region: rpsA; PRK06299 456827002914 S1_RPS1_repeat_ec1_hs1: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture...; Region: S1_RPS1_repeat_ec1_hs1; cd05687 456827002915 RNA binding site [nucleotide binding]; other site 456827002916 S1_RPS1_repeat_ec2_hs2: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture...; Region: S1_RPS1_repeat_ec2_hs2; cd04465 456827002917 RNA binding site [nucleotide binding]; other site 456827002918 S1_RPS1_repeat_ec3: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists of...; Region: S1_RPS1_repeat_ec3; cd05688 456827002919 RNA binding site [nucleotide binding]; other site 456827002920 S1_like: Ribosomal protein S1-like RNA-binding domain. Found in a wide variety of RNA-associated proteins. Originally identified in S1 ribosomal protein. This superfamily also contains the Cold Shock Domain (CSD), which is a homolog of the S1 domain...; Region: S1_like; cl09927 456827002921 RNA binding site [nucleotide binding]; other site 456827002922 S1_RPS1_repeat_ec5: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists of...; Region: S1_RPS1_repeat_ec5; cd05690 456827002923 RNA binding site [nucleotide binding]; other site 456827002924 S1_RPS1_repeat_ec2_hs2: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture...; Region: S1_RPS1_repeat_ec2_hs2; cd04465 456827002925 RNA binding site [nucleotide binding]; other site 456827002926 cytidylate kinase; Provisional; Region: cmk; PRK00023 456827002927 Cytidine monophosphate kinase (CMPK) catalyzes the reversible phosphorylation of cytidine monophosphate (CMP) to produce cytidine diphosphate (CDP), using ATP as the preferred phosphoryl donor; Region: CMPK; cd02020 456827002928 CMP-binding site; other site 456827002929 The sites determining sugar specificity; other site 456827002930 (E)-4-hydroxy-3-methyl-but-2-enyl pyrophosphate reductase (IPP and DMAPP forming); Region: ispH_lytB; TIGR00216 456827002931 LytB protein; Region: LYTB; cl00507 456827002932 Flagellar hook capping protein; Region: FlgD; cl04347 456827002933 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 456827002934 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 456827002935 Immune inhibitor A peptidase M6; Region: Peptidase_M6; cl11525 456827002936 Flavin Reductases; Region: FlaRed; cl00801 456827002937 Predicted membrane-associated HD superfamily hydrolase [General function prediction only]; Region: COG1480 456827002938 7TM receptor with intracellular HD hydrolase; Region: 7TM-7TMR_HD; pfam07698 456827002939 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 456827002940 Zn2+ binding site [ion binding]; other site 456827002941 Mg2+ binding site [ion binding]; other site 456827002942 Uncharacterized protein family UPF0054; Region: UPF0054; cl00402 456827002943 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 456827002944 Domain of unknown function DUF21; Region: DUF21; pfam01595 456827002945 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains associated with the CorC_HlyC domain. CorC_HlyC is a transporter associated domain. This small domain is found in Na+/H+ antiporters, in proteins involved in...; Region: CBS_pair_CorC_HlyC_assoc; cd04590 456827002946 Transporter associated domain; Region: CorC_HlyC; pfam03471 456827002947 Protein of unknown function (DUF3108); Region: DUF3108; pfam11306 456827002948 VanZ like family; Region: VanZ; cl01971 456827002949 ABC-type transport system involved in resistance to organic solvents, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2A; COG1127 456827002950 ABC (ATP-binding cassette) transport system involved in resistant to organic solvents; ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex...; Region: ABC_Org_Solvent_Resistant; cd03261 456827002951 Walker A/P-loop; other site 456827002952 ATP binding site [chemical binding]; other site 456827002953 Q-loop/lid; other site 456827002954 ABC transporter signature motif; other site 456827002955 Walker B; other site 456827002956 D-loop; other site 456827002957 H-loop/switch region; other site 456827002958 Heptaprenyl diphosphate synthase component I; Region: Hpre_diP_synt_I; cl01973 456827002959 Transglycosylase; Region: Transgly; cl07896 456827002960 penicillin-binding protein, 1A family; Region: PBP_1a_fam; TIGR02074 456827002961 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01039 456827002962 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 456827002963 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cl11394 456827002964 active site 456827002965 UDP-N-acetylglucosamine diphosphorylase/glucosamine-1-phosphate N-acetyltransferase; Region: alt_bact_glmU; TIGR03991 456827002966 Uncharacterized proteins, Left-handed parallel beta-Helix (LbH) domain: Members in this group are uncharacterized bacterial proteins containing a LbH domain with multiple turns, each containing three imperfect tandem repeats of a hexapeptide repeat...; Region: LbH_unknown; cd05635 456827002967 PSP1 C-terminal conserved region; Region: PSP1; cl00770 456827002968 Radical SAM superfamily. Enzymes of this family generate radicals by combining a 4Fe-4S cluster and S-adenosylmethionine (SAM) in close proximity. They are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster...; Region: Radical_SAM; cl14056 456827002969 Predicted Fe-S-cluster redox enzyme [General function prediction only]; Region: COG0820 456827002970 2-deoxyribose-5-phosphate aldolase (DERA) of the DeoC family; Region: DeoC; cd00959 456827002971 intersubunit interface [polypeptide binding]; other site 456827002972 active site 456827002973 catalytic residue [active] 456827002974 Thymidylate synthase complementing protein; Region: Thy1; cl03630 456827002975 Thymidylate synthase complementing protein; Region: Thy1; cl03630 456827002976 aspartate aminotransferase; Provisional; Region: PRK06836 456827002977 Aspartate aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). Pyridoxal phosphate combines with an alpha-amino acid to form a compound called a Schiff base or aldimine...; Region: AAT_like; cd00609 456827002978 pyridoxal 5'-phosphate binding site [chemical binding]; other site 456827002979 homodimer interface [polypeptide binding]; other site 456827002980 catalytic residue [active] 456827002981 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits...; Region: TM_PBP2; cd06261 456827002982 dimer interface [polypeptide binding]; other site 456827002983 conserved gate region; other site 456827002984 putative PBP binding loops; other site 456827002985 ABC-ATPase subunit interface; other site 456827002986 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits...; Region: TM_PBP2; cd06261 456827002987 dimer interface [polypeptide binding]; other site 456827002988 conserved gate region; other site 456827002989 putative PBP binding loops; other site 456827002990 ABC-ATPase subunit interface; other site 456827002991 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT; cl01961 456827002992 4Fe-4S binding domain; Region: Fer4_5; pfam12801 456827002993 Polyferredoxin [Energy production and conversion]; Region: NapH; COG0348 456827002994 Ebola nucleoprotein; Region: Ebola_NP; pfam05505 456827002995 4Fe-4S binding domain; Region: Fer4; cl02805 456827002996 ferredoxin; Validated; Region: PRK07118 456827002997 anaerobic ribonucleoside triphosphate reductase; Provisional; Region: PRK08270 456827002998 ATP cone domain; Region: ATP-cone; pfam03477 456827002999 Class III ribonucleotide reductase; Region: RNR_III; cd01675 456827003000 effector binding site; other site 456827003001 active site 456827003002 Zn binding site [ion binding]; other site 456827003003 glycine loop; other site 456827003004 anaerobic ribonucleoside-triphosphate reductase activating protein; Region: NrdG2; TIGR02495 456827003005 Radical SAM superfamily. Enzymes of this family generate radicals by combining a 4Fe-4S cluster and S-adenosylmethionine (SAM) in close proximity. They are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster...; Region: Radical_SAM; cd01335 456827003006 FeS/SAM binding site; other site 456827003007 radical SAM family uncharacterized protein; Region: rSAM_fuse_unch; TIGR03960 456827003008 Radical SAM superfamily. Enzymes of this family generate radicals by combining a 4Fe-4S cluster and S-adenosylmethionine (SAM) in close proximity. They are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster...; Region: Radical_SAM; cd01335 456827003009 FeS/SAM binding site; other site 456827003010 Uncharacterized protein conserved in bacteria (DUF2344); Region: DUF2344; cl02090 456827003011 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy)...; Region: AdoMet_MTases; cl12011 456827003012 transketolase; Reviewed; Region: PRK05899 456827003013 Thiamine pyrophosphate (TPP) family, Transketolase (TK) subfamily, TPP-binding module; TK catalyzes the transfer of a two-carbon unit from ketose phosphates to aldose phosphates. In heterotrophic organisms, TK provides a link between glycolysis and the...; Region: TPP_TK; cd02012 456827003014 TPP-binding site [chemical binding]; other site 456827003015 dimer interface [polypeptide binding]; other site 456827003016 Pyrimidine (PYR) binding domain of 1-deoxy-D-xylulose-5-phosphate synthase (DXS), transketolase (TK), and related proteins; Region: TPP_PYR_DXS_TK_like; cd07033 456827003017 PYR/PP interface [polypeptide binding]; other site 456827003018 dimer interface [polypeptide binding]; other site 456827003019 TPP binding site [chemical binding]; other site 456827003020 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 456827003021 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 456827003022 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 456827003023 NAD(P) binding site [chemical binding]; other site 456827003024 active site 456827003025 putative deoxyribonuclease YjjV; Provisional; Region: PRK11449 456827003026 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 456827003027 active site 456827003028 single-stranded-DNA-specific exonuclease RecJ; Region: recJ; TIGR00644 456827003029 DHH family; Region: DHH; pfam01368 456827003030 DHHA1 domain; Region: DHHA1; pfam02272 456827003031 Cytidylyltransferase family; Region: CTP_transf_1; cl00347 456827003032 Bacterial DPM1_like enzymes are related to eukaryotic DPM1; Region: DPM1_like_bac; cd04187 456827003033 Ligand binding site [chemical binding]; other site 456827003034 Putative Catalytic site [active] 456827003035 DXD motif; other site 456827003036 LolC/E family; Region: lolCE; TIGR02212 456827003037 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 456827003038 This family is comprised of MJ0796 ATP-binding cassette, macrolide-specific ABC-type efflux carrier (MacAB), and proteins involved in cell division (FtsE), and release of liporoteins from the cytoplasmic membrane (LolCDE). They are clustered together...; Region: ABC_MJ0796_Lo1CDE_FtsE; cd03255 456827003039 Walker A/P-loop; other site 456827003040 ATP binding site [chemical binding]; other site 456827003041 Q-loop/lid; other site 456827003042 ABC transporter signature motif; other site 456827003043 Walker B; other site 456827003044 D-loop; other site 456827003045 H-loop/switch region; other site 456827003046 Family of unknown function (DUF490); Region: DUF490; pfam04357 456827003047 TIGR00300 family protein; Region: TIGR00300 456827003048 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1636 456827003049 Uncharacterized BCR, COG1636; Region: DUF208; pfam02677 456827003050 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 456827003051 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 456827003052 active site 456827003053 Fic family protein [Function unknown]; Region: COG3177 456827003054 Fic/DOC family; Region: Fic; cl00960 456827003055 Uncharacterized conserved protein [Function unknown]; Region: COG3391 456827003056 Transposase [DNA replication, recombination, and repair]; Region: COG5421 456827003057 DNA replication protein DnaC; Validated; Region: PRK06835 456827003058 CRISPR/Cas system-associated protein Cas4; Region: Cas4_I-A_I-B_I-C_I-D_II-B; cl00641 456827003059 CRISPR/Cas system-associated protein Cas2; Region: Cas2_I_II_III; cd09725 456827003060 CRISPR/Cas system-associated protein Cas1; Region: Cas1_I-II-III; cd09634 456827003061 CRISPR/Cas system-associated protein Cas3''; Region: Cas3''_I; cd09641 456827003062 DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region; Region: DEXDc; cl14882 456827003063 CRISPR-associated helicase Cas3; Region: cas3_core; TIGR01587 456827003064 CRISPR/Cas system-associated RAMP superfamily protein Cas5; Region: Cas5_I; cl12040 456827003065 CRISPR/Cas system-associated RAMP superfamily protein Cas7; Region: Cas7_I-C; cl01465 456827003066 CRISPR/Cas system-associated protein Cas8b; Region: Cas8b_I-B; cl09718 456827003067 nitrogen fixation protein NifM; Region: nifM_nitrog; TIGR02933 456827003068 PPIC-type PPIASE domain; Region: Rotamase; cl08278 456827003069 IPP transferase; Region: IPPT; cl00403 456827003070 DNA mismatch repair protein; Reviewed; Region: mutL; PRK00095 456827003071 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 456827003072 ATP binding site [chemical binding]; other site 456827003073 Mg2+ binding site [ion binding]; other site 456827003074 G-X-G motif; other site 456827003075 MutL_Trans: transducer domain, having a ribosomal S5 domain 2-like fold, conserved in the C-terminal domain of type II DNA topoisomerases (Topo II) and DNA mismatch repair (MutL/MLH1/PMS2) proteins. This transducer domain is homologous to the second...; Region: TopoII_MutL_Trans; cl02783 456827003076 ATP binding site [chemical binding]; other site 456827003077 MutL C terminal dimerisation domain; Region: MutL_C; cl07336 456827003078 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK00413 456827003079 Uridine kinase [Nucleotide transport and metabolism]; Region: Udk; COG0572 456827003080 Uridine monophosphate kinase_like (UMPK_like) is a family of proteins highly similar to the uridine monophosphate kinase (UMPK, EC 2.7.1.48), also known as uridine kinase or uridine-cytidine kinase (UCK); Region: UMPK_like; cd02028 456827003081 Active site [active] 456827003082 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 456827003083 Uncharacterized conserved protein [Function unknown]; Region: COG1284 456827003084 Uncharacterized protein conserved in bacteria (DUF2179); Region: DUF2179; cl10498 456827003085 Mycoplasma pulmonis MnuA nuclease-like; Region: MnuA_DNase1-like; cd10283 456827003086 putative active site [active] 456827003087 putative catalytic site [active] 456827003088 putative Mg binding site IVb [ion binding]; other site 456827003089 putative phosphate binding site [ion binding]; other site 456827003090 putative DNA binding site [nucleotide binding]; other site 456827003091 putative Mg binding site IVa [ion binding]; other site 456827003092 Peptidase family C25; Region: Peptidase_C25; pfam01364 456827003093 Flagellar hook capping protein; Region: FlgD; cl04347 456827003094 dihydroorotate dehydrogenase (subfamily 1) family protein; Region: pyrD_sub1_fam; TIGR01037 456827003095 Dihydroorotate dehydrogenase (DHOD) class 1B FMN-binding domain. DHOD catalyzes the oxidation of (S)-dihydroorotate to orotate. This is the fourth step and the only redox reaction in the de novo biosynthesis of UMP, the precursor of all pyrimidine...; Region: DHOD_1B_like; cd04740 456827003096 heterodimer interface [polypeptide binding]; other site 456827003097 active site 456827003098 FMN binding site [chemical binding]; other site 456827003099 homodimer interface [polypeptide binding]; other site 456827003100 substrate binding site [chemical binding]; other site 456827003101 2-polyprenylphenol hydroxylase and related flavodoxin oxidoreductases [Coenzyme metabolism / Energy production and conversion]; Region: UbiB; COG0543 456827003102 FAD/NAD binding domain in the electron transfer subunit of dihydroorotate dehydrogenase. Dihydroorotate dehydrogenases (DHODs) catalyze the only redox reaction in pyrimidine de novo biosynthesis. They catalyze the oxidation of (S)-dihydroorotate to...; Region: DHOD_e_trans; cd06218 456827003103 FAD binding pocket [chemical binding]; other site 456827003104 FAD binding motif [chemical binding]; other site 456827003105 phosphate binding motif [ion binding]; other site 456827003106 beta-alpha-beta structure motif; other site 456827003107 NAD binding pocket [chemical binding]; other site 456827003108 Iron coordination center [ion binding]; other site 456827003109 dihydroorotase; Validated; Region: pyrC; PRK09357 456827003110 Superfamily of metallo-dependent hydrolases (also called amidohydrolase superfamily) is a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the members have...; Region: metallo-dependent_hydrolases; cl00281 456827003111 Dihydroorotase (DHOase), subgroup IIa; DHOases catalyze the reversible interconversion of carbamoyl aspartate to dihydroorotate, a key reaction in pyrimidine biosynthesis. This subgroup also contains proteins that lack the active site, like unc-33, a C...; Region: DHOase_IIa; cd01317 456827003112 active site 456827003113 aspartate carbamoyltransferase catalytic subunit; Provisional; Region: pyrB; PRK00856 456827003114 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 456827003115 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 456827003116 Peptidase S8 family domain, uncharacterized subfamily 15; Region: Peptidases_S8_15; cd07498 456827003117 active site 456827003118 catalytic triad [active] 456827003119 Protein of unknown function (DUF1013); Region: DUF1013; cl11533 456827003120 putative PEP-CTERM system TPR-repeat lipoprotein; Region: PEP_TPR_lipo; TIGR02917 456827003121 Curli production assembly/transport component CsgG; Region: CsgG; cl00639 456827003122 Outer membrane cobalamin receptor protein [Coenzyme metabolism]; Region: BtuB; COG4206 456827003123 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 456827003124 N-terminal plug; other site 456827003125 ligand-binding site [chemical binding]; other site 456827003126 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 456827003127 substrate binding pocket [chemical binding]; other site 456827003128 chain length determination region; other site 456827003129 substrate-Mg2+ binding site; other site 456827003130 catalytic residues [active] 456827003131 aspartate-rich region 1; other site 456827003132 active site lid residues [active] 456827003133 aspartate-rich region 2; other site 456827003134 Capsular polysaccharide biosynthesis protein [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: CapC; COG4464 456827003135 PHP domain; Region: PHP; pfam02811 456827003136 NAD dependent epimerase/dehydratase family; Region: Epimerase; pfam01370 456827003137 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 456827003138 NAD(P) binding site [chemical binding]; other site 456827003139 active site 456827003140 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy)...; Region: AdoMet_MTases; cl12011 456827003141 Uncharacterised protein family (UPF0104); Region: UPF0104; cl04219 456827003142 MoxR-like ATPases [General function prediction only]; Region: COG0714 456827003143 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 456827003144 Uncharacterized conserved protein [Function unknown]; Region: COG5276 456827003145 D12 class N6 adenine-specific DNA methyltransferase; Region: MethyltransfD12; cl00408 456827003146 DpnII restriction endonuclease; Region: DpnII; pfam04556 456827003147 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy)...; Region: AdoMet_MTases; cl12011 456827003148 DNA gyrase subunit A; Validated; Region: PRK05560 456827003149 DNA Topoisomerase, subtype IIA; domain A'; bacterial DNA topoisomerase IV (C subunit, ParC), bacterial DNA gyrases (A subunit, GyrA),mammalian DNA toposiomerases II. DNA topoisomerases are essential enzymes that regulate the conformational changes in...; Region: TOP4c; cd00187 456827003150 CAP-like domain; other site 456827003151 Active site [active] 456827003152 primary dimer interface [polypeptide binding]; other site 456827003153 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 456827003154 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 456827003155 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 456827003156 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 456827003157 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 456827003158 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 456827003159 DNA gyrase subunit B; Validated; Region: gyrB; PRK05644 456827003160 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 456827003161 ATP binding site [chemical binding]; other site 456827003162 Mg2+ binding site [ion binding]; other site 456827003163 G-X-G motif; other site 456827003164 TopoIIA_Trans_DNA_gyrase: Transducer domain, having a ribosomal S5 domain 2-like fold, of the type found in proteins of the type IIA family of DNA topoisomerases similar to the B subunits of E. coli DNA gyrase and E. coli Topoisomerase IV which are...; Region: TopoII_Trans_DNA_gyrase; cd00822 456827003165 anchoring element; other site 456827003166 dimer interface [polypeptide binding]; other site 456827003167 ATP binding site [chemical binding]; other site 456827003168 TOPRIM_TopoIIA_GyrB: topoisomerase-primase (TOPRIM) nucleotidyl transferase/hydrolase domain of the type found in proteins of the type IIA family of DNA topoisomerases similar to the Escherichia coli GyrB subunit. TopoIIA enzymes cut both strands of...; Region: TOPRIM_TopoIIA_GyrB; cd03366 456827003169 active site 456827003170 putative metal-binding site [ion binding]; other site 456827003171 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 456827003172 uncharacterized radical SAM protein YgiQ; Region: SAM_YgiQ; TIGR03904 456827003173 Radical SAM superfamily. Enzymes of this family generate radicals by combining a 4Fe-4S cluster and S-adenosylmethionine (SAM) in close proximity. They are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster...; Region: Radical_SAM; cl14056 456827003174 Domain of unknown function (DUF3362); Region: DUF3362; pfam11842 456827003175 Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box protein...; Region: CSP_CDS; cd04458 456827003176 DNA-binding site [nucleotide binding]; DNA binding site 456827003177 RNA-binding motif; other site 456827003178 Response regulator receiver domain; Region: Response_reg; pfam00072 456827003179 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems...; Region: REC; cd00156 456827003180 active site 456827003181 phosphorylation site [posttranslational modification] 456827003182 intermolecular recognition site; other site 456827003183 dimerization interface [polypeptide binding]; other site 456827003184 D-alanine--D-alanine ligase; Reviewed; Region: ddl; PRK01372 456827003185 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 456827003186 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; cl03087 456827003187 FecR protein; Region: FecR; pfam04773 456827003188 CHASE2 domain; Region: CHASE2; cl01732 456827003189 cyclase homology domain; Region: CHD; cd07302 456827003190 nucleotidyl binding site; other site 456827003191 metal binding site [ion binding]; metal-binding site 456827003192 dimer interface [polypeptide binding]; other site 456827003193 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 456827003194 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cd05188 456827003195 NAD(P) binding site [chemical binding]; other site 456827003196 lysine-2,3-aminomutase; Region: lys_2_3_AblA; TIGR03820 456827003197 Radical SAM superfamily. Enzymes of this family generate radicals by combining a 4Fe-4S cluster and S-adenosylmethionine (SAM) in close proximity. They are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster...; Region: Radical_SAM; cd01335 456827003198 FeS/SAM binding site; other site 456827003199 Lysine-2,3-aminomutase; Region: LAM_C; pfam12544 456827003200 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 456827003201 Cation efflux family; Region: Cation_efflux; cl00316 456827003202 putative peptidase; Provisional; Region: PRK11649 456827003203 Peptidase family M23; Region: Peptidase_M23; pfam01551 456827003204 Cobalt transport protein; Region: CbiQ; cl00463 456827003205 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 456827003206 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 456827003207 Walker A/P-loop; other site 456827003208 ATP binding site [chemical binding]; other site 456827003209 Q-loop/lid; other site 456827003210 ABC transporter signature motif; other site 456827003211 Walker B; other site 456827003212 D-loop; other site 456827003213 H-loop/switch region; other site 456827003214 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 456827003215 Walker A/P-loop; other site 456827003216 ATP binding site [chemical binding]; other site 456827003217 Q-loop/lid; other site 456827003218 ABC transporter signature motif; other site 456827003219 Walker B; other site 456827003220 D-loop; other site 456827003221 H-loop/switch region; other site 456827003222 ABC-type cobalt transport system, permease component; Region: ABC_cobalt; cl01943 456827003223 Deoxycytidylate deaminase domain. Deoxycytidylate deaminase catalyzes the deamination of dCMP to dUMP, providing the nucleotide substrate for thymidylate synthase. The enzyme binds Zn++, which is required for catalytic activity. The activity of the...; Region: deoxycytidylate_deaminase; cd01286 456827003224 catalytic motif [active] 456827003225 Zn binding site [ion binding]; other site 456827003226 Carbohydrate binding domain; Region: CBM_4_9; pfam02018 456827003227 Transposase domain (DUF772); Region: DUF772; cl12084 456827003228 DNA polymerase I; Provisional; Region: PRK05755 456827003229 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 456827003230 active site 456827003231 metal binding site 1 [ion binding]; metal-binding site 456827003232 putative 5' ssDNA interaction site; other site 456827003233 metal binding site 3; metal-binding site 456827003234 metal binding site 2 [ion binding]; metal-binding site 456827003235 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 456827003236 putative DNA binding site [nucleotide binding]; other site 456827003237 putative metal binding site [ion binding]; other site 456827003238 DEDDy 3'-5' exonuclease domain of Escherichia coli DNA polymerase I and similar bacterial family-A DNA polymerases; Region: DNA_polA_I_Ecoli_like_exo; cd06139 456827003239 active site 456827003240 catalytic site [active] 456827003241 substrate binding site [chemical binding]; other site 456827003242 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_C; cd08637 456827003243 active site 456827003244 DNA binding site [nucleotide binding] 456827003245 catalytic site [active] 456827003246 desulfoferrodoxin; Region: dfx_rbo; TIGR00320 456827003247 Desulforedoxin (DSRD) domain; a small non-heme iron domain present in the desulforedoxin (rubredoxin oxidoreductase) and desulfoferrodoxin proteins of some archeael and bacterial methanogens and sulfate/sulfur reducers. Desulforedoxin is a small...; Region: DSRD; cd00974 456827003248 non-heme iron binding site [ion binding]; other site 456827003249 dimer interface [polypeptide binding]; other site 456827003250 Superoxide reductase-like (SORL) domain; present in a family of mononuclear non-heme iron proteins that includes superoxide reductase and desulfoferrodoxin. Superoxide reductase-like proteins scavenge superoxide anion radicals as a defense mechanism...; Region: SORL; cl00014 456827003251 non-heme iron binding site [ion binding]; other site 456827003252 Rubrerythrin [Energy production and conversion]; Region: COG1592 456827003253 Rubrerythrin, ferritin-like diiron-binding domain; Region: Rubrerythrin; cd01041 456827003254 binuclear metal center [ion binding]; other site 456827003255 Rubredoxin, Small Modular nonheme iron binding domain containing a [Fe(SCys)4] center, present in rubrerythrin and nigerythrin and detected either N- or C-terminal to such proteins as flavin reductase, NAD(P)H-nitrite reductase, and ferredoxin-...; Region: rubredoxin_SM; cd00729 456827003256 iron binding site [ion binding]; other site 456827003257 Rubredoxin [Energy production and conversion]; Region: COG1773 456827003258 Rubredoxin; nonheme iron binding domains containing a [Fe(SCys)4] center. Rubredoxins are small nonheme iron proteins. The iron atom is coordinated by four cysteine residues (Fe(S-Cys)4), but iron can also be replaced by cobalt, nickel or zinc. They...; Region: rubredoxin; cd00730 456827003259 iron binding site [ion binding]; other site 456827003260 Uncharacterized family of ferritin-like proteins found in archaea and bacteria; Region: Ferritin_like_AB; cd01045 456827003261 diiron binding motif [ion binding]; other site 456827003262 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214; cl14000 456827003263 Predicted extracellular nuclease [General function prediction only]; Region: COG2374 456827003264 Endonuclease I; Region: Endonuclease_1; cl01003 456827003265 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 456827003266 Walker A/P-loop; other site 456827003267 ATP binding site [chemical binding]; other site 456827003268 Q-loop/lid; other site 456827003269 ABC transporter signature motif; other site 456827003270 Walker B; other site 456827003271 Domain of unknown function DUF140; Region: DUF140; cl00510 456827003272 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 456827003273 FGGY family of carbohydrate kinases, N-terminal domain; Region: FGGY_N; cl09121 456827003274 Uncharacterized family of ferritin-like proteins found in archaea and bacteria; Region: Ferritin_like_AB; cd01045 456827003275 diiron binding motif [ion binding]; other site 456827003276 recombination factor protein RarA; Reviewed; Region: PRK13342 456827003277 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes...; Region: AAA; cd00009 456827003278 Walker A motif; other site 456827003279 ATP binding site [chemical binding]; other site 456827003280 Walker B motif; other site 456827003281 arginine finger; other site 456827003282 MgsA AAA+ ATPase C terminal; Region: MgsA_C; cl13440 456827003283 UDP-N-acetylglucosamine acyltransferase; Provisional; Region: PRK05289 456827003284 UDP-N-acetylglucosamine O-acyltransferase (UDP-GlcNAc acyltransferase): Proteins in this family catalyze the transfer of (R)-3-hydroxymyristic acid from its acyl carrier protein thioester to UDP-GlcNAc. It is the first enzyme in the lipid A...; Region: LbH_UDP-GlcNAc_AT; cd03351 456827003285 active site 456827003286 bifunctional UDP-3-O-[3-hydroxymyristoyl] N-acetylglucosamine deacetylase/(3R)-hydroxymyristoyl-[acyl-carrier-protein] dehydratase; Reviewed; Region: PRK13188 456827003287 UDP-3-O-acyl-N-acetylglucosamine deacetylase [Cell envelope biogenesis, outer membrane]; Region: LpxC; cl00512 456827003288 FabZ is a 17kD beta-hydroxyacyl-acyl carrier protein (ACP) dehydratase that primarily catalyzes the dehydration of beta-hydroxyacyl-ACP to trans-2-acyl-ACP, the third step in the elongation phase of the bacterial/ plastid, type II, fatty-acid...; Region: FabZ; cd01288 456827003289 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase; Provisional; Region: lpxD; PRK00892 456827003290 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase, LpxD; Region: LpxD; pfam04613 456827003291 UDP-3-O-acyl-glucosamine N-acyltransferase (LpxD): The enzyme catalyzes the transfer of 3-hydroxymyristic acid or 3-hydroxy-arachidic acid, depending on the organism, from the acyl carrier protein (ACP) to UDP-3-O-acyl-glucosamine to produce UDP-2,3-...; Region: LbH_LpxD; cd03352 456827003292 trimer interface [polypeptide binding]; other site 456827003293 active site 456827003294 UDP-GlcNAc binding site [chemical binding]; other site 456827003295 lipid binding site [chemical binding]; lipid-binding site 456827003296 Outer membrane protein [Cell envelope biogenesis, outer membrane]; Region: HlpA; COG2825 456827003297 Outer membrane protein (OmpH-like); Region: OmpH; cl08146 456827003298 Glycine cleavage system protein P (pyridoxal-binding), C-terminal domain [Amino acid transport and metabolism]; Region: GcvP; COG1003 456827003299 Glycine cleavage system P-protein, alpha- and beta-subunits. This family consists of Glycine cleavage system P-proteins EC:1.4.4.2 from bacterial, mammalian and plant sources. The P protein is part of the glycine decarboxylase multienzyme complex EC:2...; Region: GDC-P; cd00613 456827003300 tetramer interface [polypeptide binding]; other site 456827003301 pyridoxal 5'-phosphate binding site [chemical binding]; other site 456827003302 catalytic residue [active] 456827003303 Glycine cleavage system protein P (pyridoxal-binding), N-terminal domain [Amino acid transport and metabolism]; Region: GcvP; COG0403 456827003304 Glycine cleavage system P-protein, alpha- and beta-subunits. This family consists of Glycine cleavage system P-proteins EC:1.4.4.2 from bacterial, mammalian and plant sources. The P protein is part of the glycine decarboxylase multienzyme complex EC:2...; Region: GDC-P; cd00613 456827003305 tetramer interface [polypeptide binding]; other site 456827003306 pyridoxal 5'-phosphate binding site [chemical binding]; other site 456827003307 catalytic residue [active] 456827003308 Flagellar hook capping protein; Region: FlgD; cl04347 456827003309 Immune inhibitor A peptidase M6; Region: Peptidase_M6; cl11525 456827003310 Type II secretory pathway, component PulF [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulF; COG1459 456827003311 Bacterial type II secretion system protein F domain; Region: GSPII_F; cl00906 456827003312 Bacterial type II secretion system protein F domain; Region: GSPII_F; cl00906 456827003313 type IV-A pilus assembly ATPase PilB; Region: type_IV_pilB; TIGR02538 456827003314 GSPII_E N-terminal domain; Region: GSPII_E_N; pfam05157 456827003315 PulE/GspE The type II secretory pathway is the main terminal branch of the general secretory pathway (GSP). It is responsible for the export the majority of Gram-negative bacterial exoenzymes and toxins. PulE is a cytoplasmic protein of the GSP, which...; Region: PulE-GspE; cd01129 456827003316 Walker A motif; other site 456827003317 ATP binding site [chemical binding]; other site 456827003318 Walker B motif; other site 456827003319 Bacterial Ig-like domain (group 1); Region: Big_1; cl10510 456827003320 type IV pilus secretin (or competence protein) PilQ; Region: IV_pilus_PilQ; TIGR02515 456827003321 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 456827003322 Bacterial type II and III secretion system protein; Region: Secretin; cl02829 456827003323 Competence protein A; Region: Competence_A; pfam11104 456827003324 Tfp pilus assembly protein, pilus retraction ATPase PilT [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilT; COG2805 456827003325 Pilus retraction ATPase PilT. PilT is a nucleotide binding protein responsible for the retraction of type IV pili, likely by pili disassembly. This retraction provides the force required for travel of bacteria in low water environments by a mechanism...; Region: PilT; cd01131 456827003326 Walker A motif; other site 456827003327 ATP binding site [chemical binding]; other site 456827003328 Walker B motif; other site 456827003329 peptidylprolyl isomerase; Provisional; Region: prsA; PRK00059 456827003330 outer membrane assembly lipoprotein YfiO; Region: OM_YfiO; TIGR03302 456827003331 putative PEP-CTERM system TPR-repeat lipoprotein; Region: PEP_TPR_lipo; TIGR02917 456827003332 putative PEP-CTERM system TPR-repeat lipoprotein; Region: PEP_TPR_lipo; TIGR02917 456827003333 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi...; Region: TPR; cl02429 456827003334 Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of...; Region: vWFA; cl00057 456827003335 metal ion-dependent adhesion site (MIDAS); other site 456827003336 VWA BatA type: Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-...; Region: vWA_BatA_type; cd01467 456827003337 metal ion-dependent adhesion site (MIDAS); other site 456827003338 Protein of unknown function DUF58; Region: DUF58; pfam01882 456827003339 Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of...; Region: vWFA; cl00057 456827003340 MoxR-like ATPases [General function prediction only]; Region: COG0714 456827003341 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 456827003342 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 456827003343 Ribosomal L28 family; Region: Ribosomal_L28; cl00367 456827003344 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 456827003345 effector domain of the CAP family of transcription factors; members include CAP (or cAMP receptor protein (CRP)), which binds cAMP, FNR (fumarate and nitrate reduction), which uses an iron-sulfur cluster to sense oxygen) and CooA, a heme containing CO...; Region: CAP_ED; cd00038 456827003346 ligand binding site [chemical binding]; other site 456827003347 flexible hinge region; other site 456827003348 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via trans-...; Region: HisKA; cd00082 456827003349 dimer interface [polypeptide binding]; other site 456827003350 phosphorylation site [posttranslational modification] 456827003351 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 456827003352 ATP binding site [chemical binding]; other site 456827003353 Mg2+ binding site [ion binding]; other site 456827003354 G-X-G motif; other site 456827003355 glyoxylate reductase; Reviewed; Region: PRK13243 456827003356 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 456827003357 Proteins of this family catalyze the reduction of flavin or nitrocompounds using NAD(P)H as electron donor in a obligatory two-electron transfer, utilizing FMN or FAD as cofactor. They are often found to be homodimers. Enzymes of this family are...; Region: Nitro_FMN_reductase; cl00514 456827003358 FMN binding site [chemical binding]; other site 456827003359 dimer interface [polypeptide binding]; other site 456827003360 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 456827003361 cyclophilin: cyclophilin-type peptidylprolyl cis- trans isomerases. This family contains eukaryotic, bacterial and archeal proteins which exhibit a peptidylprolyl cis- trans isomerases activity (PPIase, Rotamase) and in addition bind the...; Region: cyclophilin; cd00317 456827003362 cyclophilin: cyclophilin-type peptidylprolyl cis- trans isomerases. This family contains eukaryotic, bacterial and archeal proteins which exhibit a peptidylprolyl cis- trans isomerases activity (PPIase, Rotamase) and in addition bind the...; Region: cyclophilin; cd00317 456827003363 active site 456827003364 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 456827003365 Escherichia coli YbbF/LpxH and related proteins, metallophosphatase domain; Region: MPP_YbbF-LpxH; cd07398 456827003366 putative active site [active] 456827003367 putative metal binding site [ion binding]; other site 456827003368 outer membrane assembly lipoprotein YfgL; Region: assembly_YfgL; TIGR03300 456827003369 Radical SAM superfamily. Enzymes of this family generate radicals by combining a 4Fe-4S cluster and S-adenosylmethionine (SAM) in close proximity. They are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster...; Region: Radical_SAM; cd01335 456827003370 FeS/SAM binding site; other site 456827003371 CLI_3235-class bacteriocin maturation radical SAM enzyme; Region: rSAM_ocin_clost; TIGR04068 456827003372 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cl11394 456827003373 active site 456827003374 RNA binding domain of NusB (N protein-Utilization Substance B) and Sun (also known as RrmB or Fmu) proteins. This family includes two orthologous groups exemplified by the transcription termination factor NusB and the N-terminal domain of the rRNA-...; Region: NusB_Sun; cl00223 456827003375 putative RNA binding site [nucleotide binding]; other site 456827003376 lumazine synthase (6,7-dimethyl-8-ribityllumazine synthase, LS), catalyzes the penultimate step in the biosynthesis of riboflavin (vitamin B2); type-I; Region: Lumazine_synthase-I; cd09209 456827003377 homopentamer interface [polypeptide binding]; other site 456827003378 active site 456827003379 M18 Peptidase Aspartyl aminopeptidase; Region: M18_DAP; cd05658 456827003380 active site 456827003381 metal binding site [ion binding]; metal-binding site 456827003382 S23 ribosomal protein; Region: Ribosomal_S23p; cl05287 456827003383 Protein of unknown function (DUF1015); Region: DUF1015; cl01715 456827003384 ribosomal protein S12 methylthiotransferase RimO; Region: TIGR01125 456827003385 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 456827003386 Radical SAM superfamily. Enzymes of this family generate radicals by combining a 4Fe-4S cluster and S-adenosylmethionine (SAM) in close proximity. They are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster...; Region: Radical_SAM; cl14056 456827003387 tryptophanyl-tRNA synthetase; Region: trpS; TIGR00233 456827003388 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 456827003389 active site 456827003390 HIGH motif; other site 456827003391 dimer interface [polypeptide binding]; other site 456827003392 KMSKS motif; other site 456827003393 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 456827003394 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by...; Region: ABCF_EF-3; cd03221 456827003395 ABC transporter; Region: ABC_tran_2; pfam12848 456827003396 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by...; Region: ABCF_EF-3; cd03221 456827003397 Predicted xylanase/chitin deacetylase [Carbohydrate transport and metabolism]; Region: CDA1; COG0726 456827003398 Polysaccharide deacetylase; Region: Polysacc_deac_1; cl12061 456827003399 bifunctional phosphopantothenoylcysteine decarboxylase/phosphopantothenate synthase; Validated; Region: PRK05579 456827003400 Flavoprotein; Region: Flavoprotein; cl08021 456827003401 DNA / pantothenate metabolism flavoprotein; Region: DFP; cl04410 456827003402 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 456827003403 classical (c) SDRs; Region: SDR_c; cd05233 456827003404 NAD(P) binding site [chemical binding]; other site 456827003405 active site 456827003406 Protein of unknown function (DUF3108); Region: DUF3108; pfam11306 456827003407 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Provisional; Region: queA; PRK00147 456827003408 Queuosine biosynthesis protein; Region: Queuosine_synth; cl00523 456827003409 Biotin-(acetyl-CoA carboxylase) ligase [Coenzyme metabolism]; Region: BirA; COG0340 456827003410 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; cl14057 456827003411 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi...; Region: TPR; cd00189 456827003412 TPR motif; other site 456827003413 binding surface 456827003414 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi...; Region: TPR; cd00189 456827003415 binding surface 456827003416 TPR motif; other site 456827003417 outer membrane assembly lipoprotein YfiO; Region: OM_YfiO; TIGR03302 456827003418 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 456827003419 putative acyl-acceptor binding pocket; other site 456827003420 ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]; Region: Lon; COG0466 456827003421 Found in ATP-dependent protease La (LON); Region: LON; cl01056 456827003422 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes...; Region: AAA; cd00009 456827003423 Walker A motif; other site 456827003424 ATP binding site [chemical binding]; other site 456827003425 Walker B motif; other site 456827003426 arginine finger; other site 456827003427 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 456827003428 effector domain of the CAP family of transcription factors; members include CAP (or cAMP receptor protein (CRP)), which binds cAMP, FNR (fumarate and nitrate reduction), which uses an iron-sulfur cluster to sense oxygen) and CooA, a heme containing CO...; Region: CAP_ED; cd00038 456827003429 ligand binding site [chemical binding]; other site 456827003430 flexible hinge region; other site 456827003431 Ion channel; Region: Ion_trans_2; cl11596 456827003432 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 456827003433 Domain of unknown function (DUF477); Region: DUF477; cl01535 456827003434 bifunctional 3,4-dihydroxy-2-butanone 4-phosphate synthase/GTP cyclohydrolase II protein; Provisional; Region: PRK09311 456827003435 3,4-dihydroxy-2-butanone 4-phosphate synthase; Region: DHBP_synthase; cl00336 456827003436 GTP cyclohydrolase II (RibA). GTP cyclohydrolase II catalyzes the conversion of GTP to 2,5-diamino-6-ribosylamino-4(3H)-pyrimidinone 5' phosphate, formate, pyrophosphate (APy), and GMP in the biosynthetic pathway of riboflavin. Riboflavin is the...; Region: GTP_cyclohydro2; cd00641 456827003437 dimerization interface [polypeptide binding]; other site 456827003438 active site 456827003439 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 456827003440 S4/Hsp/ tRNA synthetase RNA-binding domain; The domain surface is populated by conserved, charged residues that define a likely RNA-binding site; Found in stress proteins, ribosomal proteins and tRNA synthetases; This may imply a hitherto unrecognized...; Region: S4; cd00165 456827003441 RNA binding surface [nucleotide binding]; other site 456827003442 PseudoU_synth_RsuA/RluD: Pseudouridine synthase, RsuA/RluD family. This group is comprised of eukaryotic, bacterial and archeal proteins similar to eight site specific Escherichia coli pseudouridine synthases: RsuA, RluA, RluB, RluC, RluD, RluE, RluF...; Region: PseudoU_synth_RluCD_like; cd02869 456827003443 active site 456827003444 K+ transport systems, NAD-binding component [Inorganic ion transport and metabolism]; Region: TrkA; COG0569 456827003445 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 456827003446 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl09110 456827003447 potassium uptake protein, TrkH family; Region: 2a38; TIGR00933 456827003448 Cation transport protein; Region: TrkH; cl10514 456827003449 Adenylate kinase (ADK) catalyzes the reversible phosphoryl transfer from adenosine triphosphates (ATP) to adenosine monophosphates (AMP) and to yield adenosine diphosphates (ADP). This enzyme is required for the biosynthesis of ADP and is essential for...; Region: ADK; cd01428 456827003450 adenylate kinase; Reviewed; Region: adk; PRK00279 456827003451 AMP-binding site [chemical binding]; other site 456827003452 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 456827003453 The M14 family of metallocarboxypeptidases (MCPs) are zinc-binding carboxypeptidases (CPs) which hydrolyze single, C-terminal amino acids from polypeptide chains, and have a recognition site for the free C-terminal carboxyl group, which is a key...; Region: Peptidase_M14_like; cl11393 456827003454 4'-phosphopantetheinyl transferase superfamily; Region: ACPS; cl00500 456827003455 The DNA repair protein O6-alkylguanine-DNA alkyltransferase (ATase; also known as AGT, AGAT and MGMT) reverses O6-alkylation DNA damage by transferring O6-alkyl adducts to an active site cysteine irreversibly, without inducing DNA strand breaks. ATases...; Region: ATase; cd06445 456827003456 DNA binding site [nucleotide binding] 456827003457 active site 456827003458 Ribosomal protein L19; Region: Ribosomal_L19; cl00406 456827003459 tRNA (Guanine-1)-methyltransferase; Region: tRNA_m1G_MT; cl00407 456827003460 16S rRNA-processing protein RimM; Provisional; Region: rimM; PRK00122 456827003461 Predicted RNA-binding protein (contains KH domain) [General function prediction only]; Region: COG1837; cl00794 456827003462 Ribosomal protein S16; Region: Ribosomal_S16; cl00368 456827003463 Predicted UDP-glucose 6-dehydrogenase [Cell envelope biogenesis, outer membrane]; Region: Ugd; COG1004 456827003464 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 456827003465 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 456827003466 UDP-glucose/GDP-mannose dehydrogenase family, UDP binding domain; Region: UDPG_MGDP_dh_C; pfam03720 456827003467 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 456827003468 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 456827003469 NAD(P) binding site [chemical binding]; other site 456827003470 active site 456827003471 Transcription antiterminator [Transcription]; Region: NusG; COG0250 456827003472 N-Utilization Substance G (NusG) N-terminal domain in the NusG Specialized Paralog (SP), UpxY; Region: NGN_SP_UpxY; cd09895 456827003473 Adenosylhomocysteinase; Provisional; Region: PTZ00075 456827003474 S-adenosyl-L-homocysteine hydrolase (AdoHycase) catalyzes the hydrolysis of S-adenosyl-L-homocysteine (AdoHyc) to form adenosine (Ado) and homocysteine (Hcy). The equilibrium lies far on the side of AdoHyc synthesis, but in nature the removal of Ado...; Region: AdoHcyase; cd00401 456827003475 oligomerization interface [polypeptide binding]; other site 456827003476 active site 456827003477 NAD+ binding site [chemical binding]; other site 456827003478 polynucleotide phosphorylase/polyadenylase; Provisional; Region: PRK11824 456827003479 3' exoribonuclease family, domain 1; Region: RNase_PH; pfam01138 456827003480 3' exoribonuclease family, domain 2; Region: RNase_PH_C; pfam03725 456827003481 Polyribonucleotide nucleotidyltransferase, RNA binding domain; Region: PNPase; pfam03726 456827003482 3' exoribonuclease family, domain 1; Region: RNase_PH; pfam01138 456827003483 3' exoribonuclease family, domain 2; Region: RNase_PH_C; pfam03725 456827003484 Polynucleotide phosphorylase (PNPase) K homology RNA-binding domain (KH). PNPase is a polyribonucleotide nucleotidyl transferase that degrades mRNA in prokaryotes and plant chloroplasts. The C-terminal region of PNPase contains domains homologous to...; Region: PNPase_KH; cd02393 456827003485 putative nucleic acid binding region [nucleotide binding]; other site 456827003486 G-X-X-G motif; other site 456827003487 S1_like: Ribosomal protein S1-like RNA-binding domain. Found in a wide variety of RNA-associated proteins. Originally identified in S1 ribosomal protein. This superfamily also contains the Cold Shock Domain (CSD), which is a homolog of the S1 domain...; Region: S1_like; cl09927 456827003488 RNA binding site [nucleotide binding]; other site 456827003489 Ribosomal protein S15 (prokaryotic)_S13 (eukaryotic) binds the central domain of 16S rRNA and is required for assembly of the small ribosomal subunit and for intersubunit association, thus representing a key element in the assembly of the whole...; Region: Ribosomal_S15p_S13e; cd00353 456827003490 16S/18S rRNA binding site [nucleotide binding]; other site 456827003491 S13e-L30e interaction site [polypeptide binding]; other site 456827003492 25S rRNA binding site [nucleotide binding]; other site 456827003493 Domain of unknown function DUF20; Region: UPF0118; cl00465 456827003494 Isoprenylcysteine carboxyl methyltransferase (ICMT) family; Region: ICMT; cl00763 456827003495 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 456827003496 Major Facilitator Superfamily; Region: MFS_1; pfam07690 456827003497 putative substrate translocation pore; other site 456827003498 ferredoxin; Validated; Region: PRK07118 456827003499 4Fe-4S binding domain; Region: Fer4; cl02805 456827003500 Electron transfer flavoprotein, alpha subunit [Energy production and conversion]; Region: FixB; COG2025 456827003501 The electron transfer flavoprotein (ETF) serves as a specific electron acceptor for various mitochondrial dehydrogenases. ETF transfers electrons to the main respiratory chain via ETF-ubiquinone oxidoreductase. ETF is an heterodimer that consists of an...; Region: ETF_alpha; cd01715 456827003502 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 456827003503 Superfamily of metallo-dependent hydrolases (also called amidohydrolase superfamily) is a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the members have...; Region: metallo-dependent_hydrolases; cl00281 456827003504 active site 456827003505 Organic radical activating enzymes [Posttranslational modification, protein turnover, chaperones]; Region: NrdG; COG0602 456827003506 Radical SAM superfamily. Enzymes of this family generate radicals by combining a 4Fe-4S cluster and S-adenosylmethionine (SAM) in close proximity. They are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster...; Region: Radical_SAM; cd01335 456827003507 FeS/SAM binding site; other site 456827003508 ThiaminS ubiquitin-like sulfur carrier protein; Region: ThiS; cd00565 456827003509 thiS-thiF/thiG interaction site; other site 456827003510 thiamine biosynthesis protein ThiF, family 2; Region: thiF_fam2; TIGR02354 456827003511 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 456827003512 ATP binding site [chemical binding]; other site 456827003513 substrate interface [chemical binding]; other site 456827003514 putative molybdopterin-guanine dinucleotide biosynthesis protein MobB/FeS domain-containing protein protein; Provisional; Region: PRK14494 456827003515 Ras-like GTPase superfamily. The Ras-like superfamily of small GTPases consists of several families with an extremely high degree of structural and functional similarity. The Ras superfamily is divided into at least four families in eukaryotes: the Ras...; Region: Ras_like_GTPase; cl10444 456827003516 MECDP_synthase (2-C-methyl-D-erythritol-2,4-cyclodiphosphate synthase), encoded by the ispF gene, catalyzes the formation of 2-C-methyl-D-erythritol 2,4-cyclodiphosphate (MEC) in the non-mevalonate deoxyxylulose (DOXP) pathway for isoprenoid...; Region: MECDP_synthase; cd00554 456827003517 homotrimer interaction site [polypeptide binding]; other site 456827003518 zinc binding site [ion binding]; other site 456827003519 CDP-binding sites; other site 456827003520 Glutamine amidotransferases class-II (GATase). The glutaminase domain catalyzes an amide nitrogen transfer from glutamine to the appropriate substrate. In this process, glutamine is hydrolyzed to glutamic acid and ammonia. This domain is related to...; Region: Gn_AT_II; cl00319 456827003521 active site 456827003522 SIS (Sugar ISomerase) domain repeat 1 found in Glucosamine 6-phosphate synthase (GlmS) and Glucosamine-6-phosphate deaminase (GlmD). The SIS domain is found in many phosphosugar isomerases and phosphosugar binding proteins. GlmS contains a N-terminal...; Region: SIS_GlmS_GlmD_1; cd05008 456827003523 dimer interface [polypeptide binding]; other site 456827003524 active site 456827003525 SIS domain. SIS (Sugar ISomerase) domains are found in many phosphosugar isomerases and phosphosugar binding proteins. SIS domains are also found in proteins that regulate the expression of genes involved in synthesis of phosphosugars; Region: SIS; cl00389 456827003526 SIS domain. SIS (Sugar ISomerase) domains are found in many phosphosugar isomerases and phosphosugar binding proteins. SIS domains are also found in proteins that regulate the expression of genes involved in synthesis of phosphosugars; Region: SIS; cl00389 456827003527 CDP-ME synthetase is involved in mevalonate-independent isoprenoid production; Region: CDP-ME_synthetase; cd02516 456827003528 substrate binding site [chemical binding]; other site 456827003529 dimer interface [polypeptide binding]; other site 456827003530 Fe-S oxidoreductases [Energy production and conversion]; Region: COG0731 456827003531 Radical SAM superfamily. Enzymes of this family generate radicals by combining a 4Fe-4S cluster and S-adenosylmethionine (SAM) in close proximity. They are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster...; Region: Radical_SAM; cd01335 456827003532 FeS/SAM binding site; other site 456827003533 outer membrane protein assembly complex, YaeT protein; Region: OM_YaeT; TIGR03303 456827003534 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 456827003535 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 456827003536 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 456827003537 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 456827003538 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 456827003539 Surface antigen; Region: Bac_surface_Ag; cl03097 456827003540 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl09100 456827003541 leukotriene A-4 hydrolase/aminopeptidase; Region: leuko_A4_hydro; TIGR02411 456827003542 Peptidase M1 family Aminopeptidase N; Region: M1_APN_4; cd09603 456827003543 Zn binding site [ion binding]; other site 456827003544 1,3-propanediol dehydrogenase-like (PPD); Region: PPD-like; cd08181 456827003545 dimer interface [polypeptide binding]; other site 456827003546 Iron-containing alcohol dehydrogenase; Region: Fe-ADH; pfam00465 456827003547 active site 456827003548 metal binding site [ion binding]; metal-binding site 456827003549 outer membrane protein assembly complex, YaeT protein; Region: OM_YaeT; TIGR03303 456827003550 Queuine tRNA-ribosyltransferase; Region: TGT; cl00409 456827003551 RIP metalloprotease RseP; Region: TIGR00054 456827003552 RseP-like Site-2 proteases (S2P), zinc metalloproteases (MEROPS family M50A), cleave transmembrane domains of substrate proteins, regulating intramembrane proteolysis (RIP) of diverse signal transduction mechanisms. In Escherichia coli, the S2P homolog...; Region: S2P-M50_PDZ_RseP-like; cd06163 456827003553 active site 456827003554 PDZ domain of bacterial and plant zinc metalloprotases, presumably membrane-associated or integral membrane proteases, which may be involved in signalling and regulatory mechanisms. May be responsible for substrate recognition and/or binding, as most...; Region: PDZ_metalloprotease; cd00989 456827003555 Site-2 protease (S2P) class of zinc metalloproteases (MEROPS family M50) cleaves transmembrane domains of substrate proteins, regulating intramembrane proteolysis (RIP) of diverse signal transduction mechanisms. Members of this family use proteolytic...; Region: S2P-M50; cl10020 456827003556 Predicted cobalamin binding protein [General function prediction only]; Region: COG5012 456827003557 B12 binding domain (B12-BD). This domain binds different cobalamid derivates, like B12 (adenosylcobamide) or methylcobalamin or methyl-Co(III) 5-hydroxybenzimidazolylcobamide, it is found in several enzymes, such as glutamate mutase, methionine...; Region: B12-binding; cd02067 456827003558 B12 binding site [chemical binding]; other site 456827003559 cobalt ligand [ion binding]; other site 456827003560 D-Lysine 5,6-aminomutase alpha subunit; Region: Lys-AminoMut_A; pfam09043 456827003561 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy)...; Region: AdoMet_MTases; cl12011 456827003562 YceG-like family; Region: YceG; pfam02618 456827003563 proteins similar to Escherichia coli yceG; Region: yceG_like; cd08010 456827003564 dimerization interface [polypeptide binding]; other site 456827003565 Uncharacterised protein family (UPF0081); Region: UPF0081; cl00525 456827003566 subunit; Region: OAD_beta; cl00816 456827003567 Cytidine deaminase zinc-binding domain. These enzymes are Zn dependent. The zinc ion in the active site plays a central role in the proposed catalytic mechanism, activating a water molecule to form a hydroxide ion that performs a nucleophilic attack on...; Region: cytidine_deaminase; cd01283 456827003568 active site 456827003569 catalytic motif [active] 456827003570 Zn binding site [ion binding]; other site 456827003571 Radical SAM superfamily. Enzymes of this family generate radicals by combining a 4Fe-4S cluster and S-adenosylmethionine (SAM) in close proximity. They are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster...; Region: Radical_SAM; cd01335 456827003572 FeS/SAM binding site; other site 456827003573 N-acetylmuramoyl-L-alanine amidase or MurNAc-LAA (also known as peptidoglycan aminohydrolase, NAMLA amidase, NAMLAA, Amidase 3, and peptidoglycan amidase; EC 3.5.1.28) is an autolysin that hydrolyzes the amide bond between N-acetylmuramoyl and L-amino...; Region: MurNAc-LAA; cd02696 456827003574 active site 456827003575 metal binding site [ion binding]; metal-binding site 456827003576 PDZ domain, also called DHR (Dlg homologous region) or GLGF (after a conserved sequence motif). Many PDZ domains bind C-terminal polypeptides, though binding to internal (non-C-terminal) polypeptides and even to lipids has been demonstrated...; Region: PDZ; cl00117 456827003577 putative FeS-containing Cyanobacterial-specific oxidoreductase; Region: cyano_FeS_chp; TIGR03279 456827003578 Radical SAM superfamily. Enzymes of this family generate radicals by combining a 4Fe-4S cluster and S-adenosylmethionine (SAM) in close proximity. They are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster...; Region: Radical_SAM; cl14056 456827003579 Protein of unknown function (DUF512); Region: DUF512; pfam04459 456827003580 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 456827003581 ABC transporter, phosphonate, periplasmic substrate-binding protein; Region: Phosphonate-bd; pfam12974 456827003582 phosphonate ABC transporter, ATP-binding protein; Region: ABC_phnC; TIGR02315 456827003583 ABC-type phosphate/phosphonate transport system. Phosphonates are a class of organophosphorus compounds characterized by a chemically stable carbon-to-phosphorus (C-P) bond. Phosphonates are widespread among naturally occurring compounds in all...; Region: ABC_PhnC_transporter; cd03256 456827003584 Walker A/P-loop; other site 456827003585 ATP binding site [chemical binding]; other site 456827003586 Q-loop/lid; other site 456827003587 ABC transporter signature motif; other site 456827003588 Walker B; other site 456827003589 D-loop; other site 456827003590 H-loop/switch region; other site 456827003591 Immune inhibitor A peptidase M6; Region: Peptidase_M6; cl11525 456827003592 Flagellar hook capping protein; Region: FlgD; cl04347 456827003593 ABC-type transport system involved in Fe-S cluster assembly, permease and ATPase components [Posttranslational modification, protein turnover, chaperones]; Region: ATM1; COG5265 456827003594 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 456827003595 Glucan exporter ATP-binding protein. In A. tumefaciens cyclic beta-1, 2-glucan must be transported into the periplasmic space to exert its action as a virluence factor. This subfamily belongs to the MRP-like family and is involved in drug, peptide...; Region: ABCC_Glucan_exporter_like; cd03254 456827003596 Walker A/P-loop; other site 456827003597 ATP binding site [chemical binding]; other site 456827003598 Q-loop/lid; other site 456827003599 ABC transporter signature motif; other site 456827003600 Walker B; other site 456827003601 D-loop; other site 456827003602 H-loop/switch region; other site 456827003603 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 456827003604 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 456827003605 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 456827003606 Walker A/P-loop; other site 456827003607 ATP binding site [chemical binding]; other site 456827003608 Q-loop/lid; other site 456827003609 ABC transporter signature motif; other site 456827003610 Walker B; other site 456827003611 D-loop; other site 456827003612 H-loop/switch region; other site 456827003613 ferredoxin; Validated; Region: PRK07118 456827003614 Putative Fe-S cluster; Region: FeS; pfam04060 456827003615 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 456827003616 The HCP family of iron-sulfur proteins includes hybrid cluster protein (HCP), acetyl-CoA synthase (ACS), and carbon monoxide dehydrogenase (CODH), all of which contain [Fe4-S4] metal clusters at their active sites. These proteins have a conserved alpha-; Region: HCP_like; cl14655 456827003617 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 456827003618 Rnf-Nqr subunit, membrane protein; Region: Rnf-Nqr; cl00597 456827003619 Rnf-Nqr subunit, membrane protein; Region: Rnf-Nqr; cl00597 456827003620 FMN-binding domain; Region: FMN_bind; cl01081 456827003621 RnfE family; Region: NQR2_RnfD_RnfE; cl00779 456827003622 C subunit; Region: rnfC; TIGR01945 456827003623 Respiratory-chain NADH dehydrogenase 51 Kd subunit; Region: Complex1_51K; pfam01512 456827003624 SLBB domain; Region: SLBB; pfam10531 456827003625 The HCP family of iron-sulfur proteins includes hybrid cluster protein (HCP), acetyl-CoA synthase (ACS), and carbon monoxide dehydrogenase (CODH), all of which contain [Fe4-S4] metal clusters at their active sites. These proteins have a conserved alpha-; Region: HCP_like; cl14655 456827003626 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 456827003627 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 456827003628 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 456827003629 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; cl01586 456827003630 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 456827003631 DNA polymerase III subunit beta; Validated; Region: PRK05643 456827003632 Beta clamp domain. The beta subunit (processivity factor) of DNA polymerase III holoenzyme, refered to as the beta clamp, forms a ring shaped dimer that encircles dsDNA (sliding clamp) in bacteria. The beta-clamp is structurally similar to the...; Region: beta_clamp; cd00140 456827003633 putative DNA binding surface [nucleotide binding]; other site 456827003634 dimer interface [polypeptide binding]; other site 456827003635 beta-clamp/clamp loader binding surface; other site 456827003636 beta-clamp/translesion DNA polymerase binding surface; other site 456827003637 recombination protein F; Reviewed; Region: recF; PRK00064 456827003638 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 456827003639 Walker A/P-loop; other site 456827003640 ATP binding site [chemical binding]; other site 456827003641 Q-loop/lid; other site 456827003642 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 456827003643 ABC transporter signature motif; other site 456827003644 Walker B; other site 456827003645 D-loop; other site 456827003646 Permeases of the major facilitator superfamily [General function prediction only]; Region: COG2270 456827003647 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 456827003648 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 456827003649 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 456827003650 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 456827003651 EcAspRS_like_N: N-terminal, anticodon recognition domain of the type found in Escherichia coli aspartyl-tRNA synthetase (AspRS), the human mitochondrial (mt) AspRS-2, the discriminating (D) Thermus thermophilus AspRS-1, and the nondiscriminating (ND)...; Region: EcAspRS_like_N; cd04317 456827003652 dimer interface [polypeptide binding]; other site 456827003653 anticodon binding site; other site 456827003654 Asp tRNA synthetase (aspRS) class II core domain. Class II assignment is based upon its structure and the presence of three characteristic sequence motifs. AspRS is a homodimer, which attaches a specific amino acid to the 3' OH group of ribose of the...; Region: AspRS_core; cd00777 456827003655 homodimer interface [polypeptide binding]; other site 456827003656 motif 1; other site 456827003657 active site 456827003658 motif 2; other site 456827003659 GAD domain; Region: GAD; pfam02938 456827003660 Class II tRNA amino-acyl synthetase-like catalytic core domain. Class II amino acyl-tRNA synthetases (aaRS) share a common fold and generally attach an amino acid to the 3' OH of ribose of the appropriate tRNA. PheRS is an exception in that it...; Region: class_II_aaRS-like_core; cl00268 456827003661 active site 456827003662 motif 3; other site 456827003663 Phosphoribosylglycinamide formyltransferase (GAR transformylase, GART); Region: FMT_core_GART; cd08645 456827003664 active site 456827003665 cosubstrate binding site; other site 456827003666 substrate binding site [chemical binding]; other site 456827003667 catalytic site [active] 456827003668 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 456827003669 MiaB-like tRNA modifying enzyme; Region: MiaB-like-C; TIGR01579 456827003670 Radical SAM superfamily. Enzymes of this family generate radicals by combining a 4Fe-4S cluster and S-adenosylmethionine (SAM) in close proximity. They are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster...; Region: Radical_SAM; cl14056 456827003671 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits...; Region: TM_PBP2; cd06261 456827003672 dimer interface [polypeptide binding]; other site 456827003673 conserved gate region; other site 456827003674 ABC-ATPase subunit interface; other site 456827003675 UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional; Region: murB; PRK13905 456827003676 FAD binding domain; Region: FAD_binding_4; pfam01565 456827003677 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 456827003678 bifunctional ATP-dependent DNA helicase/DNA polymerase III subunit epsilon; Validated; Region: PRK08074 456827003679 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 456827003680 active site 456827003681 substrate binding site [chemical binding]; other site 456827003682 catalytic site [active] 456827003683 DEAD_2; Region: DEAD_2; cl14887 456827003684 CRISPR/Cas system-associated DinG family helicase Csf4; Region: Csf4_U; cl09250 456827003685 putative PEP-CTERM system TPR-repeat lipoprotein; Region: PEP_TPR_lipo; TIGR02917 456827003686 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi...; Region: TPR; cd00189 456827003687 binding surface 456827003688 TPR motif; other site 456827003689 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi...; Region: TPR; cd00189 456827003690 binding surface 456827003691 TPR motif; other site 456827003692 Transcriptional regulator containing GAF, AAA-type ATPase, and DNA binding domains [Transcription / Signal transduction mechanisms]; Region: FhlA; COG3604 456827003693 GAF domain; Region: GAF; cl00853 456827003694 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes...; Region: AAA; cd00009 456827003695 Walker A motif; other site 456827003696 ATP binding site [chemical binding]; other site 456827003697 Walker B motif; other site 456827003698 arginine finger; other site 456827003699 Bacterial regulatory protein, Fis family; Region: HTH_8; cl01091 456827003700 Integrase core domain; Region: rve; cl01316 456827003701 Flagellar hook capping protein; Region: FlgD; cl04347 456827003702 peroxiredoxin; Provisional; Region: PRK13189 456827003703 Peroxiredoxin (PRX) family, 1-cys PRX subfamily; composed of PRXs containing only one conserved cysteine, which serves as the peroxidatic cysteine. They are homodimeric thiol-specific antioxidant (TSA) proteins that confer a protective role in cells by...; Region: PRX_1cys; cd03016 456827003704 dimer interface [polypeptide binding]; other site 456827003705 decamer (pentamer of dimers) interface [polypeptide binding]; other site 456827003706 catalytic triad [active] 456827003707 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 456827003708 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 456827003709 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; cl11611 456827003710 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 456827003711 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 456827003712 NAD(P) binding site [chemical binding]; other site 456827003713 active site 456827003714 CESA_like_1 is a member of the cellulose synthase (CESA) superfamily; Region: CESA_like_1; cd06439 456827003715 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 456827003716 DXD motif; other site 456827003717 Polysaccharide biosynthesis protein; Region: Polysacc_synt; cl10513 456827003718 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 456827003719 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 456827003720 Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. The acceptor molecule can be a lipid, a protein, a heterocyclic compound, or another carbohydrate...; Region: Glycosyltransferase_GTB_type; cl10013 456827003721 Lipopolysaccharide heptosyltransferase is involved in the biosynthesis of lipooligosaccharide (LOS). Lipopolysaccharide (LPS) is a major component of the outer membrane of gram-negative bacteria. LPS heptosyltransferase transfers heptose molecules from...; Region: GT1_LPS_heptosyltransferase; cd03789 456827003722 putative active site [active] 456827003723 Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. The acceptor molecule can be a lipid, a protein, a heterocyclic compound, or another carbohydrate...; Region: Glycosyltransferase_GTB_type; cl10013 456827003724 This family is most closely related to the GT1 family of glycosyltransferases. wlbH in Bordetella parapertussis has been shown to be required for the biosynthesis of a trisaccharide that, when attached to the B. pertussis lipopolysaccharide (LPS) core (; Region: GT1_wlbH_like; cd03798 456827003725 Predicted extracellular nuclease [General function prediction only]; Region: COG2374 456827003726 Flagellar hook capping protein; Region: FlgD; cl04347 456827003727 Cytidylyltransferase family; Region: CTP_transf_1; cl00347 456827003728 Cis (Z)-Isoprenyl Diphosphate Synthases (cis-IPPS); homodimers which catalyze the successive 1'-4 condensation of the isopentenyl diphosphate (IPP) molecule to trans,trans-farnesyl diphosphate (FPP) or to cis,trans-FPP to form long-chain polyprenyl...; Region: CIS_IPPS; cl00230 456827003729 catalytic residue [active] 456827003730 putative FPP diphosphate binding site; other site 456827003731 putative FPP binding hydrophobic cleft; other site 456827003732 dimer interface [polypeptide binding]; other site 456827003733 putative IPP diphosphate binding site; other site 456827003734 peptide chain release factor 2; Validated; Region: prfB; PRK00578 456827003735 RF-1 domain; Region: RF-1; cl02875 456827003736 RF-1 domain; Region: RF-1; cl02875 456827003737 SGNH_hydrolase, or GDSL_hydrolase, is a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known hydrolases; its active site closely...; Region: SGNH_hydrolase; cl01053 456827003738 active site 456827003739 oxyanion hole [active] 456827003740 catalytic triad [active] 456827003741 SGNH_hydrolase, or GDSL_hydrolase, is a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known hydrolases; its active site closely...; Region: SGNH_hydrolase; cl01053 456827003742 active site 456827003743 oxyanion hole [active] 456827003744 catalytic triad [active] 456827003745 MBOAT family; Region: MBOAT; cl00738 456827003746 Phosphomannose isomerase type I; Region: PMI_typeI; pfam01238 456827003747 mannose-6-phosphate isomerase; Provisional; Region: PRK15131; cl14659 456827003748 exosortase 1 system-associated amidotransferase 1; Region: eps_aminotran_1; TIGR03108 456827003749 Glutamine amidotransferases class-II (GATase) asparagine synthase_B type. Asparagine synthetase B catalyses the ATP-dependent conversion of aspartate to asparagine. This enzyme is a homodimer, with each monomer composed of a glutaminase domain and a...; Region: AsnB; cd00712 456827003750 active site 456827003751 dimer interface [polypeptide binding]; other site 456827003752 The C-terminal domain of Asparagine Synthase B. This domain is always found associated n-terminal amidotransferase domain. Family members that contain this domain catalyse the conversion of aspartate to asparagine. Asparagine synthetase B catalyzes...; Region: Asn_Synthase_B_C; cd01991 456827003753 Ligand Binding Site [chemical binding]; other site 456827003754 Molecular Tunnel; other site 456827003755 Alpha-2-macroglobulin RAP, C-terminal domain; Region: Alpha-2-MRAP_C; pfam06401 456827003756 inosine 5'-monophosphate dehydrogenase; Reviewed; Region: PRK05567 456827003757 TIM barrel proteins share a structurally conserved phosphate binding motif and in general share an eight beta/alpha closed barrel structure. Specific for this family is the conserved phosphate binding site at the edges of strands 7 and 8. The phosphate...; Region: TIM_phosphate_binding; cl09108 456827003758 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains in the inosine 5' monophosphate dehydrogenase (IMPDH) protein. IMPDH is an essential enzyme that catalyzes the first step unique to GTP synthesis, playing a key...; Region: CBS_pair_IMPDH; cd04601 456827003759 IMPDH: The catalytic domain of the inosine monophosphate dehydrogenase. IMPDH catalyzes the NAD-dependent oxidation of inosine 5'-monophosphate (IMP) to xanthosine 5' monophosphate (XMP). It is a rate-limiting step in the de novo synthesis of the...; Region: IMPDH; cd00381 456827003760 active site 456827003761 DNA breaking-rejoining enzymes, C-terminal catalytic domain. The DNA breaking-rejoining enzyme superfamily includes type IB topoisomerases and tyrosine recombinases that share the same fold in their catalytic domain containing six conserved active site...; Region: DNA_BRE_C; cl00213 456827003762 tyrosine recombinase XerD; Region: recomb_XerD; TIGR02225 456827003763 DNA binding site [nucleotide binding] 456827003764 Int/Topo IB signature motif; other site 456827003765 active site 456827003766 ABC transporter, substrate-binding protein, aliphatic sulfonates family; Region: SsuA_fam; TIGR01728 456827003767 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 456827003768 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 456827003769 NrtD and SsuB are the ATP-binding subunits of the bacterial ABC-type nitrate and sulfonate transport systems, respectively. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars...; Region: ABC_NrtD_SsuB_transporters; cd03293 456827003770 Walker A/P-loop; other site 456827003771 ATP binding site [chemical binding]; other site 456827003772 Q-loop/lid; other site 456827003773 ABC transporter signature motif; other site 456827003774 Walker B; other site 456827003775 D-loop; other site 456827003776 H-loop/switch region; other site 456827003777 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 456827003778 GGCT-like domains, also called AIG2-like family. Gamma-glutamyl cyclotransferase (GGCT) catalyzes the formation of pyroglutamic acid (5-oxoproline) from dipeptides containing gamma-glutamyl, and is a dimeric protein. In Homo sapiens, the protein is...; Region: GGCT_like; cl11426 456827003779 CoA-transferase family III; Region: CoA_transf_3; cl00778 456827003780 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 456827003781 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; pfam01315 456827003782 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 456827003783 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 456827003784 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 456827003785 Aerobic-type carbon monoxide dehydrogenase, middle subunit CoxM/CutM homologs [Energy production and conversion]; Region: CoxM; COG1319 456827003786 CO dehydrogenase flavoprotein C-terminal domain; Region: CO_deh_flav_C; pfam03450 456827003787 Putative cyclase; Region: Cyclase; cl00814 456827003788 membrane protein FdrA; Validated; Region: PRK06091 456827003789 Protein of unknown function (DUF1116); Region: DUF1116; pfam06545 456827003790 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 456827003791 CoA-ligase; Region: Ligase_CoA; pfam00549 456827003792 Protein of unknown function (DUF2877); Region: DUF2877; pfam11392 456827003793 signal recognition particle protein; Provisional; Region: PRK10867 456827003794 SRP54-type protein, helical bundle domain; Region: SRP54_N; pfam02881 456827003795 The signal recognition particle (SRP) mediates the transport to or across the plasma membrane in bacteria and the endoplasmic reticulum in eukaryotes. SRP recognizes N-terminal sighnal sequences of newly synthesized polypeptides at the ribosome. The...; Region: SRP; cd03115 456827003796 P loop; other site 456827003797 GTP binding site [chemical binding]; other site 456827003798 Signal peptide binding domain; Region: SRP_SPB; pfam02978 456827003799 Ribulose-5-phosphate 3-epimerase (RPE). This enzyme catalyses the interconversion of D-ribulose 5-phosphate (Ru5P) into D-xylulose 5-phosphate, as part of the Calvin cycle (reductive pentose phosphate pathway) in chloroplasts and in the oxidative...; Region: RPE; cd00429 456827003800 ribulose-phosphate 3-epimerase; Region: rpe; TIGR01163 456827003801 substrate binding site [chemical binding]; other site 456827003802 hexamer interface [polypeptide binding]; other site 456827003803 metal binding site [ion binding]; metal-binding site 456827003804 Protein of unknown function (DUF721); Region: DUF721; cl02324 456827003805 50S ribosomal protein L9; Reviewed; Region: rplI; PRK00137 456827003806 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 456827003807 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 456827003808 Ribosomal protein S18; Region: Ribosomal_S18; cl00373 456827003809 SSB_OBF: A subfamily of OB folds similar to the OB fold of ssDNA-binding protein (SSB). SSBs bind with high affinity to ssDNA. They bind to and protect ssDNA intermediates during DNA metabolic pathways. All bacterial and eukaryotic SSBs studied to date...; Region: SSB_OBF; cd04496 456827003810 dimer interface [polypeptide binding]; other site 456827003811 ssDNA binding site [nucleotide binding]; other site 456827003812 tetramer (dimer of dimers) interface [polypeptide binding]; other site 456827003813 Ribosomal protein S6; Region: Ribosomal_S6; cl00414 456827003814 Peptidyl-tRNA hydrolase (PTH) is a monomeric protein that cleaves the ester bond linking the nascent peptide and tRNA when peptidyl-tRNA is released prematurely from the ribosome. This ensures the recycling of peptidyl-tRNAs into tRNAs produced through...; Region: PTH; cd00462 456827003815 putative active site [active] 456827003816 catalytic residue [active] 456827003817 Ribosomal_L25_TL5_CTC: Ribosomal L25/TL5/CTC N-terminal 5S rRNA binding domain. L25 is a single-domain protein, homologous to the N-terminal domain of TL5 and CTC, which each contain two domains. CTC is a known stress protein, and proteins of this...; Region: Ribosomal_L25_TL5_CTC; cd00495 456827003818 5S rRNA interface [nucleotide binding]; other site 456827003819 CTC domain interface; other site 456827003820 L16 interface [polypeptide binding]; other site 456827003821 Phosphoribosylpyrophosphate synthetase [Nucleotide transport and metabolism / Amino acid transport and metabolism]; Region: PrsA; COG0462 456827003822 Phosphoribosyl transferase domain; Region: Pribosyltran; cl00309 456827003823 Flagellar hook capping protein; Region: FlgD; cl04347 456827003824 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Validated; Region: PRK09369 456827003825 UDP-N-acetylglucosamine enolpyruvyl transferase catalyzes enolpyruvyl transfer as part of the first step in the biosynthesis of peptidoglycan, a component of the bacterial cell wall. The reaction is phosphoenolpyruvate + UDP-N-acetyl-D-glucosamine =...; Region: UdpNAET; cd01555 456827003826 hinge; other site 456827003827 active site 456827003828 N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase; Provisional; Region: PRK09328 456827003829 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy)...; Region: AdoMet_MTases; cd02440 456827003830 S-adenosylmethionine binding site [chemical binding]; other site 456827003831 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems...; Region: REC; cd00156 456827003832 active site 456827003833 phosphorylation site [posttranslational modification] 456827003834 intermolecular recognition site; other site 456827003835 dimerization interface [polypeptide binding]; other site 456827003836 Sulphate Transporter and Anti-Sigma factor antagonist) domain of anti-anti-sigma factors, key regulators of anti-sigma factors by phosphorylation; Region: STAS_anti-anti-sigma_factors; cd07043 456827003837 anti sigma factor interaction site; other site 456827003838 regulatory phosphorylation site [posttranslational modification]; other site 456827003839 elongation factor G; Reviewed; Region: PRK12739 456827003840 Elongation factor G (EF-G) subfamily. Translocation is mediated by EF-G (also called translocase). The structure of EF-G closely resembles that of the complex between EF-Tu and tRNA. This is an example of molecular mimicry; a protein domain evolved...; Region: EF-G; cd01886 456827003841 G1 box; other site 456827003842 putative GEF interaction site [polypeptide binding]; other site 456827003843 GTP/Mg2+ binding site [chemical binding]; other site 456827003844 Switch I region; other site 456827003845 G2 box; other site 456827003846 G3 box; other site 456827003847 Switch II region; other site 456827003848 G4 box; other site 456827003849 G5 box; other site 456827003850 EFG_mtEFG_II: this subfamily represents the domain II of elongation factor G (EF-G) in bacteria and, the C-terminus of mitochondrial Elongation factor G1 (mtEFG1) and G2 (mtEFG2)_like proteins found in eukaryotes. During the process of peptide...; Region: EFG_mtEFG_II; cd04088 456827003851 Elongation Factor G-like domain IV. This family includes the translational elongation factor termed EF-2 (for Archaea and Eukarya) and EF-G (for Bacteria), ribosomal protection proteins that mediate tetracycline resistance and, an evolutionarily...; Region: EFG_like_IV; cl02789 456827003852 EFG_mtEFG_C: domains similar to the C-terminal domain of the bacterial translational elongation factor (EF) EF-G. Included in this group is the C-terminus of mitochondrial Elongation factor G1 (mtEFG1) and G2 (mtEFG2) proteins. Eukaryotic cells harbor...; Region: EFG_mtEFG_C; cd03713 456827003853 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 456827003854 Periplasmic component of the Tol biopolymer transport system [Intracellular trafficking and secretion]; Region: TolB; COG0823 456827003855 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 456827003856 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 456827003857 ligand binding site [chemical binding]; other site 456827003858 nucleotide sugar dehydrogenase; Region: NDP-sugDHase; TIGR03026 456827003859 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 456827003860 UDP-glucose/GDP-mannose dehydrogenase family, UDP binding domain; Region: UDPG_MGDP_dh_C; pfam03720 456827003861 dihydropyrimidine dehydrogenase subunit A; Provisional; Region: PRK11749 456827003862 dihydropyrimidine dehydrogenase subunit B; Validated; Region: PRK08318 456827003863 TIM barrel proteins share a structurally conserved phosphate binding motif and in general share an eight beta/alpha closed barrel structure. Specific for this family is the conserved phosphate binding site at the edges of strands 7 and 8. The phosphate...; Region: TIM_phosphate_binding; cl09108 456827003864 phosphate binding site [ion binding]; other site 456827003865 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and...; Region: PBPb; cd00134 456827003866 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 456827003867 substrate binding pocket [chemical binding]; other site 456827003868 membrane-bound complex binding site; other site 456827003869 hinge residues; other site 456827003870 Uncharacterized protein related to plant photosystem II stability/assembly factor [General function prediction only]; Region: COG4447 456827003871 flagellar basal body rod modification protein; Reviewed; Region: flgD; PRK06655 456827003872 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and...; Region: PBPb; cd00134 456827003873 substrate binding pocket [chemical binding]; other site 456827003874 Protein of unknown function (DUF541); Region: SIMPL; cl01077 456827003875 Uncharacterised P-loop hydrolase UPF0079; Region: UPF0079; cl00520 456827003876 Response regulator receiver domain; Region: Response_reg; pfam00072 456827003877 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems...; Region: REC; cd00156 456827003878 active site 456827003879 phosphorylation site [posttranslational modification] 456827003880 intermolecular recognition site; other site 456827003881 dimerization interface [polypeptide binding]; other site 456827003882 PglZ domain; Region: PglZ; pfam08665 456827003883 Ketopantoate hydroxymethyltransferase (KPHMT) is the first enzyme in the pantothenate biosynthesis pathway. Ketopantoate hydroxymethyltransferase (KPHMT) catalyzes the first committed step in the biosynthesis of pantothenate (vitamin B5), which is a...; Region: KPHMT-like; cd06557 456827003884 oligomerization interface [polypeptide binding]; other site 456827003885 active site 456827003886 metal binding site [ion binding]; metal-binding site 456827003887 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2849 456827003888 phosphonate ABC transporter, permease protein PhnE; Region: PhnE; TIGR01097 456827003889 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits...; Region: TM_PBP2; cl00427 456827003890 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 456827003891 pyrimidine-nucleoside phosphorylase; Region: Y_phosphoryl; TIGR02644 456827003892 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 456827003893 Pyrimidine nucleoside phosphorylase C-terminal domain; Region: PYNP_C; pfam07831 456827003894 Protein of unknown function (DUF1255); Region: DUF1255; cl01202 456827003895 putative PEP-CTERM system TPR-repeat lipoprotein; Region: PEP_TPR_lipo; TIGR02917 456827003896 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi...; Region: TPR; cd00189 456827003897 binding surface 456827003898 TPR motif; other site 456827003899 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 456827003900 GroEL_like type I chaperonin. Chaperonins are involved in productive folding of proteins. They share a common general morphology, a double toroid of 2 stacked rings, each composed of 7-9 subunits. The symmetry of type I is seven-fold and they are found...; Region: GroEL; cd03344 456827003901 ring oligomerisation interface [polypeptide binding]; other site 456827003902 ATP/Mg binding site [chemical binding]; other site 456827003903 stacking interactions; other site 456827003904 hinge regions; other site 456827003905 Fic family protein [Function unknown]; Region: COG3177 456827003906 Fic/DOC family; Region: Fic; cl00960 456827003907 enolase; Provisional; Region: eno; PRK00077 456827003908 Enolase: Enolases are homodimeric enzymes that catalyse the reversible dehydration of 2-phospho-D-glycerate to phosphoenolpyruvate as part of the glycolytic and gluconeogenesis pathways. The reaction is facilitated by the presence of metal ions; Region: enolase; cd03313 456827003909 dimer interface [polypeptide binding]; other site 456827003910 metal binding site [ion binding]; metal-binding site 456827003911 substrate binding pocket [chemical binding]; other site 456827003912 Major Facilitator Superfamily; Region: MFS_1; pfam07690 456827003913 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 456827003914 putative substrate translocation pore; other site 456827003915 Protein of unknown function (DUF975); Region: DUF975; cl10504 456827003916 Staphylococcal nuclease homologues; Region: SNc; smart00318 456827003917 Staphylococcal nuclease homologues. SNase homologues are found in bacteria, archaea, and eukaryotes. They contain no disufide bonds; Region: SNc; cl00140 456827003918 Catalytic site; other site 456827003919 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 456827003920 ligand binding site [chemical binding]; other site 456827003921 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 456827003922 cell division protein FtsZ; Region: ftsZ; TIGR00065 456827003923 Tubulin/FtsZ: Family includes tubulin alpha-, beta-, gamma-, delta-, and epsilon-tubulins as well as FtsZ, all of which are involved in polymer formation. Tubulin is the major component of microtubules, but also exists as a heterodimer and as a curved...; Region: Tubulin_FtsZ; cl10017 456827003924 Band_7_stomatin_like: A subgroup of the band 7 domain of flotillin (reggie) like proteins similar to stomatin and podicin (two lipid raft-associated integral membrane proteins). Individual proteins of this band 7 domain family may cluster to form...; Region: Band_7_stomatin_like; cd03403 456827003925 DnaQ-like (or DEDD) 3'-5' exonuclease domain superfamily; Region: DnaQ_like_exo; cl10012 456827003926 active site 456827003927 substrate binding site [chemical binding]; other site 456827003928 catalytic site [active] 456827003929 Low-specificity threonine aldolase (TA). This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). TA catalyzes the conversion of L-threonine or L-allo-threonine to glycine and acetaldehyde in a...; Region: TA_like; cd06502 456827003930 Beta-eliminating lyase; Region: Beta_elim_lyase; pfam01212 456827003931 tetramer interface [polypeptide binding]; other site 456827003932 pyridoxal 5'-phosphate binding site [chemical binding]; other site 456827003933 catalytic residue [active] 456827003934 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 456827003935 Triosephosphate isomerase (TIM) is a glycolytic enzyme that catalyzes the interconversion of dihydroxyacetone phosphate and D-glyceraldehyde-3-phosphate. The reaction is very efficient and requires neither cofactors nor metal ions. TIM, usually...; Region: TIM; cd00311 456827003936 substrate binding site [chemical binding]; other site 456827003937 dimer interface [polypeptide binding]; other site 456827003938 catalytic triad [active] 456827003939 seryl-tRNA synthetase; Provisional; Region: PRK05431 456827003940 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 456827003941 Seryl-tRNA synthetase (SerRS) class II core catalytic domain. SerRS is responsible for the attachment of serine to the 3' OH group of ribose of the appropriate tRNA. This domain It is primarily responsible for ATP-dependent formation of the enzyme...; Region: SerRS_core; cd00770 456827003942 dimer interface [polypeptide binding]; other site 456827003943 active site 456827003944 motif 1; other site 456827003945 motif 2; other site 456827003946 motif 3; other site 456827003947 Chain length determinant protein; Region: Wzz; cl01623 456827003948 Capsule polysaccharide export protein [Cell envelope biogenesis, outer membrane]; Region: KpsE; COG3524 456827003949 O-Antigen ligase; Region: Wzy_C; cl04850 456827003950 nucleoside triphosphate pyrophosphohydrolase; Reviewed; Region: mazG; PRK09562 456827003951 MazG nucleotide pyrophosphohydrolase domain; Region: MazG; cl00345 456827003952 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 456827003953 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 456827003954 ATP binding site [chemical binding]; other site 456827003955 Mg2+ binding site [ion binding]; other site 456827003956 G-X-G motif; other site 456827003957 putative carbohydrate kinase; Provisional; Region: PRK10565 456827003958 YjeF-related protein N-terminus; Region: YjeF_N; cl00318 456827003959 B.subtilis YXKO protein of unknown function and related proteins. Based on the conservation of the ATP binding site, the substrate binding site and the Mg2+binding site and structural homology this group is a member of the ribokinase-like superfamily; Region: YXKO-related; cd01171 456827003960 putative substrate binding site [chemical binding]; other site 456827003961 putative ATP binding site [chemical binding]; other site 456827003962 signal peptidase I, bacterial type; Region: sigpep_I_bact; TIGR02227 456827003963 The S26 Type I signal peptidase (SPase; LepB; leader peptidase B; leader peptidase I; EC 3.4.21.89) family members are essential membrane-bound serine proteases that function to cleave the amino-terminal signal peptide extension from proteins that are...; Region: S26_SPase_I; cd06530 456827003964 Catalytic site [active] 456827003965 The S26 Type I signal peptidase (SPase; LepB; leader peptidase B; leader peptidase I; EC 3.4.21.89) family members are essential membrane-bound serine proteases that function to cleave the amino-terminal signal peptide extension from proteins that are...; Region: S26_SPase_I; cd06530 456827003966 Coproporphyrinogen III oxidase and related Fe-S oxidoreductases [Coenzyme metabolism]; Region: HemN; COG0635 456827003967 Radical SAM superfamily. Enzymes of this family generate radicals by combining a 4Fe-4S cluster and S-adenosylmethionine (SAM) in close proximity. They are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster...; Region: Radical_SAM; cd01335 456827003968 FeS/SAM binding site; other site 456827003969 HemN C-terminal region; Region: HemN_C; pfam06969 456827003970 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 456827003971 active site 456827003972 NTP binding site [chemical binding]; other site 456827003973 metal binding triad [ion binding]; metal-binding site 456827003974 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 456827003975 Polysaccharide biosynthesis protein; Region: Polysacc_synt; cl10513 456827003976 Holliday junction DNA helicase RuvB; Reviewed; Region: ruvB; PRK00080 456827003977 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes...; Region: AAA; cd00009 456827003978 Walker A motif; other site 456827003979 ATP binding site [chemical binding]; other site 456827003980 Walker B motif; other site 456827003981 arginine finger; other site 456827003982 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 456827003983 DPM1_like represents putative enzymes similar to eukaryotic DPM1; Region: DPM1_like; cd06442 456827003984 Ligand binding site [chemical binding]; other site 456827003985 Putative Catalytic site [active] 456827003986 DXD motif; other site 456827003987 Left-handed parallel beta-Helix (LbetaH or LbH) domain: The alignment contains 5 turns, each containing three imperfect tandem repeats of a hexapeptide repeat motif (X-[STAV]-X-[LIV]-[GAED]-X). Proteins containing hexapeptide repeats are often enzymes...; Region: LbetaH; cl00160 456827003988 putative trimer interface [polypeptide binding]; other site 456827003989 putative CoA binding site [chemical binding]; other site 456827003990 WcxM-like, Left-handed parallel beta-Helix (LbH) N-terminal domain: This group is composed of Xanthomonas campestris WcxM and proteins with similarity to the WcxM N-terminal domain. WcxM is thought to be bifunctional, catalyzing both the isomerization...; Region: LbH_WxcM_N_like; cd03358 456827003991 putative trimer interface [polypeptide binding]; other site 456827003992 putative active site [active] 456827003993 putative substrate binding site [chemical binding]; other site 456827003994 putative CoA binding site [chemical binding]; other site 456827003995 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 456827003996 N- and C-terminal domains. XerD-like integrases are involved in the site-specific integration and excision of lysogenic bacteriophage genomes, transposition of conjugative transposons, termination of chromosomal replication, and stable plasmid...; Region: INT_XerDC; cd00798 456827003997 Int/Topo IB signature motif; other site 456827003998 active site 456827003999 B12 binding domain (B12-BD). Most of the members bind different cobalamid derivates, like B12 (adenosylcobamide) or methylcobalamin or methyl-Co(III) 5-hydroxybenzimidazolylcobamide. This domain is found in several enzymes, such as glutamate mutase...; Region: B12-binding_like; cl00293 456827004000 B12 binding site [chemical binding]; other site 456827004001 Radical SAM; Region: Elp3; smart00729 456827004002 Radical SAM superfamily. Enzymes of this family generate radicals by combining a 4Fe-4S cluster and S-adenosylmethionine (SAM) in close proximity. They are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster...; Region: Radical_SAM; cl14056 456827004003 putative NADPH-dependent glutamate synthase small subunit; Provisional; Region: PRK12814 456827004004 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cd00207 456827004005 catalytic loop [active] 456827004006 iron binding site [ion binding]; other site 456827004007 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; cl14644 456827004008 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; cl14644 456827004009 Uncharacterized anaerobic dehydrogenase [General function prediction only]; Region: COG3383 456827004010 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and tungsten-...; Region: Molybdopterin-Binding; cl09928 456827004011 Thioredoxin (TRX)-like [2Fe-2S] Ferredoxin (Fd) family; composed of [2Fe-2S] Fds with a TRX fold (TRX-like Fds) and proteins containing domains similar to TRX-like Fd including formate dehydrogenases, NAD-reducing hydrogenases and the subunit E of NADH:; Region: TRX_Fd_family; cd02980 456827004012 dimer interface [polypeptide binding]; other site 456827004013 [2Fe-2S] cluster binding site [ion binding]; other site 456827004014 NADH:ubiquinone oxidoreductase, NADH-binding (51 kD) subunit [Energy production and conversion]; Region: NuoF; COG1894 456827004015 Respiratory-chain NADH dehydrogenase 51 Kd subunit; Region: Complex1_51K; pfam01512 456827004016 SLBB domain; Region: SLBB; pfam10531 456827004017 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; pfam10589 456827004018 Indolepyruvate ferredoxin oxidoreductase, alpha and beta subunits [Energy production and conversion]; Region: COG4231 456827004019 NADH-quinone oxidoreductase, E subunit; Region: nuoE_fam; TIGR01958 456827004020 TRX-like [2Fe-2S] Ferredoxin (Fd) family, NADH:ubiquinone oxidoreductase (Nuo) subunit E subfamily; Nuo, also called respiratory chain Complex 1, is the entry point for electrons into the respiratory chains of bacteria and the mitochondria of...; Region: TRX_Fd_NuoE; cd03064 456827004021 putative dimer interface [polypeptide binding]; other site 456827004022 [2Fe-2S] cluster binding site [ion binding]; other site 456827004023 30S ribosomal protein S1; Provisional; Region: rpsA; PRK13806 456827004024 S1_RPS1_repeat_ec1_hs1: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture...; Region: S1_RPS1_repeat_ec1_hs1; cd05687 456827004025 RNA binding site [nucleotide binding]; other site 456827004026 S1_RPS1_repeat_ec2_hs2: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture...; Region: S1_RPS1_repeat_ec2_hs2; cd04465 456827004027 RNA binding site [nucleotide binding]; other site 456827004028 S1_RPS1_repeat_ec3: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists of...; Region: S1_RPS1_repeat_ec3; cd05688 456827004029 RNA binding site [nucleotide binding]; other site 456827004030 S1_like: Ribosomal protein S1-like RNA-binding domain. Found in a wide variety of RNA-associated proteins. Originally identified in S1 ribosomal protein. This superfamily also contains the Cold Shock Domain (CSD), which is a homolog of the S1 domain...; Region: S1_like; cl09927 456827004031 RNA binding site [nucleotide binding]; other site 456827004032 S1_like: Ribosomal protein S1-like RNA-binding domain. Found in a wide variety of RNA-associated proteins. Originally identified in S1 ribosomal protein. This superfamily also contains the Cold Shock Domain (CSD), which is a homolog of the S1 domain...; Region: S1_like; cl09927 456827004033 RNA binding site [nucleotide binding]; other site 456827004034 lysyl-tRNA synthetase; Reviewed; Region: lysS; PRK00484 456827004035 LysRS_N: N-terminal, anticodon recognition domain of lysyl-tRNA synthetases (LysRS). These enzymes are homodimeric class 2b aminoacyl-tRNA synthetases (aaRSs). This domain is a beta-barrel domain (OB fold) involved in binding the tRNA anticodon stem-...; Region: LysRS_N; cd04322 456827004036 dimer interface [polypeptide binding]; other site 456827004037 putative anticodon binding site; other site 456827004038 Lys_tRNA synthetase (LysRS) class II core domain. Class II LysRS is a dimer which attaches a lysine to the 3' OH group of ribose of the appropriate tRNA. Its assignment to class II aaRS is based upon its structure and the presence of three...; Region: LysRS_core; cd00775 456827004039 motif 1; other site 456827004040 active site 456827004041 motif 2; other site 456827004042 motif 3; other site 456827004043 heat shock protein 90; Provisional; Region: PRK05218 456827004044 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 456827004045 ATP binding site [chemical binding]; other site 456827004046 Mg2+ binding site [ion binding]; other site 456827004047 G-X-G motif; other site 456827004048 Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all...; Region: FN3; cl00065 456827004049 Flagellar hook capping protein; Region: FlgD; cl04347 456827004050 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 456827004051 Aspartate aminotransferase (AAT) superfamily (fold type I) of pyridoxal phosphate (PLP)-dependent enzymes. PLP combines with an alpha-amino acid to form a compound called a Schiff base or aldimine intermediate, which depending on the reaction, is the...; Region: AAT_I; cl00321 456827004052 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 456827004053 catalytic residue [active] 456827004054 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 456827004055 trimerization site [polypeptide binding]; other site 456827004056 active site 456827004057 Domain of unknown function DUF59; Region: DUF59; cl00941 456827004058 Fibronectin type 3 domain-containing protein [General function prediction only]; Region: COG3401 456827004059 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 456827004060 Lipopolysaccharide heptosyltransferase is involved in the biosynthesis of lipooligosaccharide (LOS). Lipopolysaccharide (LPS) is a major component of the outer membrane of gram-negative bacteria. LPS heptosyltransferase transfers heptose molecules from...; Region: GT1_LPS_heptosyltransferase; cd03789 456827004061 putative active site [active] 456827004062 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 456827004063 Alanyl-tRNA synthetase (AlaRS) class II core catalytic domain. AlaRS is a homodimer. It is responsible for the attachment of alanine to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for ATP-dependent formation...; Region: AlaRS_core; cd00673 456827004064 motif 1; other site 456827004065 active site 456827004066 motif 2; other site 456827004067 motif 3; other site 456827004068 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; cl08469 456827004069 DHHA1 domain; Region: DHHA1; pfam02272 456827004070 thioredoxin-disulfide reductase; Region: TRX_reduct; TIGR01292 456827004071 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; cl14644 456827004072 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; cl14644 456827004073 ATP-dependent DNA helicase RecG; Provisional; Region: PRK10917 456827004074 RecG_wedge_OBF: A subfamily of OB folds corresponding to the OB fold found in the N-terminal (wedge) domain of Escherichia coli RecG. RecG is a branched-DNA-specific helicase, which catalyzes the interconversion of a DNA replication fork to a four-...; Region: RecG_wedge_OBF; cd04488 456827004075 ssDNA binding site; other site 456827004076 generic binding surface II; other site 456827004077 DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region; Region: DEXDc; cd00046 456827004078 ATP binding site [chemical binding]; other site 456827004079 putative Mg++ binding site [ion binding]; other site 456827004080 Helicase superfamily c-terminal domain; associated with DEXDc-, DEAD-, and DEAH-box proteins, yeast initiation factor 4A, Ski2p, and Hepatitis C virus NS3 helicases; this domain is found in a wide variety of helicases and helicase related proteins; may...; Region: HELICc; cd00079 456827004081 nucleotide binding region [chemical binding]; other site 456827004082 ATP-binding site [chemical binding]; other site 456827004083 Helix-hairpin-helix motif; Region: HHH_3; pfam12836 456827004084 Helix-hairpin-helix motif; Region: HHH_3; pfam12836 456827004085 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cl14786 456827004086 Endonuclease I; Region: Endonuclease_1; cl01003 456827004087 Phosphoheptose isomerase is a member of the SIS (Sugar ISomerase) superfamily. Phosphoheptose isomerase catalyzes the isomerization of sedoheptulose 7-phosphate into D-glycero-D-mannoheptose 7-phosphate. This is the first step of the biosynthesis of...; Region: SIS_GmhA; cd05006 456827004088 dimer interface [polypeptide binding]; other site 456827004089 active site 456827004090 Adenosine deaminase (ADA) is a monomeric zinc dependent enzyme which catalyzes the irreversible hydrolytic deamination of both adenosine, as well as desoxyadenosine, to ammonia and inosine or desoxyinosine, respectively. ADA plays an important role in...; Region: ADA; cd01320 456827004091 active site 456827004092 purine riboside binding site [chemical binding]; other site 456827004093 Predicted ATPase [General function prediction only]; Region: COG4637 456827004094 Protein of unknown function (DUF2813); Region: DUF2813; pfam11398 456827004095 bacterial Ribonuclease HIII-like; Region: RNase_HII_bacteria_HIII_like; cd06590 456827004096 RNA/DNA hybrid binding site [nucleotide binding]; other site 456827004097 active site 456827004098 Folylpolyglutamate synthase [Coenzyme metabolism]; Region: FolC; COG0285 456827004099 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 456827004100 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 456827004101 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic 'goose-type' lysozymes (GEWL). LTs catalyze...; Region: LT_GEWL; cd00254 456827004102 N-acetyl-D-glucosamine binding site [chemical binding]; other site 456827004103 catalytic residue [active] 456827004104 Uncharacterized family of ferritin-like proteins found in archaea and bacteria; Region: Ferritin_like_AB; cd01045 456827004105 diiron binding motif [ion binding]; other site 456827004106 Sulfite oxidase (SO) family, molybdopterin binding domain. This molybdopterin cofactor (Moco) binding domain is found in a variety of oxidoreductases, main members of this family are nitrate reductase (NR) and sulfite oxidase (SO). SO catalyzes the...; Region: SO_family_Moco; cl00199 456827004107 Moco binding site; other site 456827004108 metal coordination site [ion binding]; other site 456827004109 EamA-like transporter family; Region: EamA; cl01037 456827004110 Uncharacterised protein family (UPF0104); Region: UPF0104; cl04219 456827004111 Malic enzyme [Energy production and conversion]; Region: SfcA; COG0281 456827004112 Malic enzyme, N-terminal domain; Region: malic; pfam00390 456827004113 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 456827004114 putative NAD(P) binding site [chemical binding]; other site 456827004115 methylmalonyl-CoA decarboxylase alpha subunit; Region: mmdA; TIGR01117 456827004116 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl00513 456827004117 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl00513 456827004118 pyruvate carboxylase subunit B; Validated; Region: PRK09282 456827004119 Pyruvate carboxylase and Transcarboxylase 5S, carboxyltransferase domain; Region: DRE_TIM_PC_TC_5S; cd07937 456827004120 active site 456827004121 catalytic residues [active] 456827004122 metal binding site [ion binding]; metal-binding site 456827004123 homodimer binding site [polypeptide binding]; other site 456827004124 Conserved carboxylase domain; Region: PYC_OADA; pfam02436 456827004125 The biotinyl-domain or biotin carboxyl carrier protein (BCCP) domain is present in all biotin-dependent enzymes, such as acetyl-CoA carboxylase, pyruvate carboxylase, propionyl-CoA carboxylase, methylcrotonyl-CoA carboxylase, geranyl-CoA carboxylase...; Region: biotinyl_domain; cd06850 456827004126 carboxyltransferase (CT) interaction site; other site 456827004127 biotinylation site [posttranslational modification]; other site 456827004128 S23 ribosomal protein; Region: Ribosomal_S23p; cl05287 456827004129 Phosphoribosyl transferase domain; Region: Pribosyltran; cl00309 456827004130 Orotidine 5'-phosphate decarboxylase (ODCase) is a dimeric enzyme that decarboxylates orotidine 5'-monophosphate (OMP) to form uridine 5'-phosphate (UMP), an essential step in the pyrimidine biosynthetic pathway. In mammals, UMP synthase contains two...; Region: OMP_decarboxylase_like; cd04725 456827004131 active site 456827004132 dimer interface [polypeptide binding]; other site 456827004133 VPS10 domain; Region: VPS10; smart00602 456827004134 Serine/threonine phosphatases, family 2C, catalytic domain; The protein architecture and deduced catalytic mechanism of PP2C phosphatases are similar to the PP1, PP2A, PP2B family of protein Ser/Thr phosphatases, with which PP2C shares no sequence...; Region: PP2Cc; cl00120 456827004135 Active site [active] 456827004136 Glutamine amidotransferases class-II (GATase). The glutaminase domain catalyzes an amide nitrogen transfer from glutamine to the appropriate substrate. In this process, glutamine is hydrolyzed to glutamic acid and ammonia. This domain is related to...; Region: Gn_AT_II; cl00319 456827004137 The C-terminal domain of Asparagine Synthase B. This domain is always found associated n-terminal amidotransferase domain. Family members that contain this domain catalyse the conversion of aspartate to asparagine. Asparagine synthetase B catalyzes...; Region: Asn_Synthase_B_C; cd01991 456827004138 Ligand Binding Site [chemical binding]; other site 456827004139 Molecular Tunnel; other site 456827004140 Carboxypeptidase (CP) N/E-like subfamily of the M14 family of metallocarboxypeptidases (MCPs). The M14 family are zinc-binding CPs which hydrolyze single, C-terminal amino acids from polypeptide chains, and have a recognition site for the free C-...; Region: M14_CP_N-E_like; cd03858 456827004141 active site 456827004142 Zn-binding site [ion binding]; other site 456827004143 Propeptide_C25; Region: Propeptide_C25; pfam08126 456827004144 Peptidase family C25; Region: Peptidase_C25; pfam01364 456827004145 Peptidase family C25, C terminal ig-like domain; Region: Peptidase_C25_C; pfam03785 456827004146 Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all...; Region: FN3; cl00065 456827004147 Integration host factor (IHF) and HU are small heterodimeric members of the DNABII protein family that bind and bend DNA, functioning as architectural factors in many cellular processes including transcription, site-specific recombination, and higher-...; Region: HU_IHF; cd00591 456827004148 IHF dimer interface [polypeptide binding]; other site 456827004149 IHF - DNA interface [nucleotide binding]; other site 456827004150 Butanol dehydrogenase catalyzes the conversion of butyraldehyde to butanol with the cofactor NAD(P)H being oxidized in the process; Region: BDH; cd08187 456827004151 Iron-containing alcohol dehydrogenase; Region: Fe-ADH; pfam00465 456827004152 dimer interface [polypeptide binding]; other site 456827004153 active site 456827004154 metal binding site [ion binding]; metal-binding site 456827004155 preprotein translocase subunit SecA; Reviewed; Region: secA; PRK12900 456827004156 DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region; Region: DEXDc; cl14882 456827004157 ATP binding site [chemical binding]; other site 456827004158 putative Mg++ binding site [ion binding]; other site 456827004159 SecA preprotein cross-linking domain; Region: SecA_PP_bind; pfam01043 456827004160 Helicase superfamily c-terminal domain; associated with DEXDc-, DEAD-, and DEAH-box proteins, yeast initiation factor 4A, Ski2p, and Hepatitis C virus NS3 helicases; this domain is found in a wide variety of helicases and helicase related proteins; may...; Region: HELICc; cd00079 456827004161 nucleotide binding region [chemical binding]; other site 456827004162 ATP-binding site [chemical binding]; other site 456827004163 DNA topoisomerase I; Validated; Region: PRK06599 456827004164 TOPRIM_TopoIA_TopoI: The topoisomerase-primase (TORPIM) domain found in members of the type IA family of DNA topoisomerases (Topo IA) similar to Escherichia coli DNA topoisomerase I. Type IA DNA topoisomerases remove (relax) negative supercoils in...; Region: TOPRIM_TopoIA_TopoI; cd03363 456827004165 active site 456827004166 interdomain interaction site; other site 456827004167 putative metal-binding site [ion binding]; other site 456827004168 nucleotide binding site [chemical binding]; other site 456827004169 DNA Topoisomerase, subtype IA; DNA-binding, ATP-binding and catalytic domain of bacterial DNA topoisomerases I and III, and eukaryotic DNA topoisomerase III and eubacterial and archael reverse gyrases. Topoisomerases clevage single or double stranded...; Region: TOP1Ac; cd00186 456827004170 domain I; other site 456827004171 DNA binding groove [nucleotide binding] 456827004172 phosphate binding site [ion binding]; other site 456827004173 domain II; other site 456827004174 domain III; other site 456827004175 nucleotide binding site [chemical binding]; other site 456827004176 catalytic site [active] 456827004177 domain IV; other site 456827004178 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; cl11977 456827004179 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; cl11977 456827004180 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; cl11977 456827004181 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 456827004182 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 456827004183 FtsX-like permease family; Region: FtsX; pfam02687 456827004184 Isoprenylcysteine carboxyl methyltransferase (ICMT) family; Region: ICMT; cl00763 456827004185 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 456827004186 The Bin/Amphiphysin/Rvs (BAR) domain, a dimerization module that binds membranes and detects membrane curvature; Region: BAR; cl12013 456827004187 outer membrane assembly lipoprotein YfiO; Region: OM_YfiO; TIGR03302 456827004188 putative PEP-CTERM system TPR-repeat lipoprotein; Region: PEP_TPR_lipo; TIGR02917 456827004189 transcription factor, RsfA family; Region: DNA_bind_RsfA; TIGR02894 456827004190 Uncharacterised protein family UPF0102; Region: UPF0102; cl00516 456827004191 DNA polymerase III subunit alpha; Validated; Region: dnaE; PRK05673 456827004192 DNA polymerase alpha chain like domain; Region: POLIIIAc; smart00481 456827004193 Bacterial DNA polymerase III alpha subunit; Region: DNA_pol3_alpha; pfam07733 456827004194 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 456827004195 This family is most closely related to the GT1 family of glycosyltransferases. wbuB in E. coli is involved in the biosynthesis of the O26 O-antigen. It has been proposed to function as an N-acetyl-L-fucosamine (L-FucNAc) transferase; Region: GT1_wbuB_like; cd03794 456827004196 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 456827004197 Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. The acceptor molecule can be a lipid, a protein, a heterocyclic compound, or another carbohydrate...; Region: Glycosyltransferase_GTB_type; cl10013 456827004198 glucose-6-phosphate isomerase; Provisional; Region: PRK00973 456827004199 Phosphoglucose isomerase (PGI) contains two SIS (Sugar ISomerase) domains. This classification is based on the alignment of the first SIS domain. PGI is a multifunctional enzyme which as an intracellular dimer catalyzes the reversible isomerization of...; Region: SIS_PGI_1; cd05015 456827004200 active site 456827004201 dimer interface [polypeptide binding]; other site 456827004202 Phosphoglucose isomerase (PGI) contains two SIS (Sugar ISomerase) domains. This classification is based on the alignment of the second SIS domain. PGI is a multifunctional enzyme which as an intracellular dimer catalyzes the reversible isomerization of...; Region: SIS_PGI_2; cd05016 456827004203 dimer interface [polypeptide binding]; other site 456827004204 active site 456827004205 Phosphoenolpyruvate-protein kinase (PTS system EI component in bacteria) [Carbohydrate transport and metabolism]; Region: PtsA; COG1080 456827004206 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 456827004207 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; cl01586 456827004208 Pyruvate kinase (PK): Large allosteric enzyme that regulates glycolysis through binding of the substrate, phosphoenolpyruvate, and one or more allosteric effectors. Like other allosteric enzymes, PK has a high substrate affinity R state and a low...; Region: Pyruvate_Kinase; cl09155 456827004209 Histidine-containing phosphocarrier protein (HPr)-like proteins. HPr is a central component of the bacterial phosphoenolpyruvate sugar phosphotransferase system (PTS). The PTS catalyses the phosphorylation of sugar substrates during their translocation...; Region: PTS-HPr_like; cd00367 456827004210 dimerization domain swap beta strand [polypeptide binding]; other site 456827004211 regulatory protein interface [polypeptide binding]; other site 456827004212 active site 456827004213 regulatory phosphorylation site [posttranslational modification]; other site 456827004214 HPr kinase/phosphorylase; Provisional; Region: PRK05428 456827004215 DRTGG domain; Region: DRTGG; cl12147 456827004216 HprK/P, the bifunctional histidine-containing protein kinase/phosphatase, controls the phosphorylation state of the phosphocarrier protein HPr and regulates the utilization of carbon sources by gram-positive bacteria. It catalyzes both the ATP-...; Region: HprK_C; cd01918 456827004217 Hpr binding site; other site 456827004218 active site 456827004219 homohexamer subunit interaction site [polypeptide binding]; other site 456827004220 RaiA ('ribosome-associated inhibitor A', also known as Protein Y (PY), YfiA, and SpotY, is a stress-response protein that binds the ribosomal subunit interface and arrests translation by interfering with aminoacyl-tRNA binding to the ribosomal A site...; Region: RaiA; cd00552 456827004221 30S subunit binding site; other site 456827004222 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; cl14644 456827004223 dihydrolipoamide dehydrogenase; Region: lipoamide_DH; TIGR01350 456827004224 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; cl14644 456827004225 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 456827004226 RNA polymerase factor sigma-54; Reviewed; Region: PRK05932 456827004227 Sigma-54 factor, Activator interacting domain (AID); Region: Sigma54_AID; pfam00309 456827004228 Sigma-54 factor, core binding domain; Region: Sigma54_CBD; pfam04963 456827004229 Sigma-54, DNA binding domain; Region: Sigma54_DBD; pfam04552 456827004230 ABC-type (unclassified) transport system, ATPase component [General function prediction only]; Region: YhbG; COG1137 456827004231 The ABC transporters belonging to the YhbG family are similar to members of the Mj1267_LivG family, which is involved in the transport of branched-chain amino acids. The genes yhbG and yhbN are located in a single operon and may function together in...; Region: ABC_YhbG; cd03218 456827004232 Walker A/P-loop; other site 456827004233 ATP binding site [chemical binding]; other site 456827004234 Q-loop/lid; other site 456827004235 ABC transporter signature motif; other site 456827004236 Walker B; other site 456827004237 D-loop; other site 456827004238 H-loop/switch region; other site 456827004239 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1934 456827004240 Lipopolysaccharide-assembly, LptC-related; Region: LptC; pfam06835 456827004241 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others...; Region: HAD_like; cl11391 456827004242 NeuB family; Region: NeuB; cl00496 456827004243 S-adenosylmethionine synthetase; Validated; Region: PRK05250 456827004244 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 456827004245 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 456827004246 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 456827004247 methylmalonyl-CoA decarboxylase alpha subunit; Region: mmdA; TIGR01117 456827004248 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl00513 456827004249 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl00513 456827004250 Oxaloacetate decarboxylase, gamma chain; Region: OAD_gamma; cl01458 456827004251 putative acetyl-CoA carboxylase biotin carboxyl carrier protein subunit; Validated; Region: PRK05641 456827004252 The biotinyl-domain or biotin carboxyl carrier protein (BCCP) domain is present in all biotin-dependent enzymes, such as acetyl-CoA carboxylase, pyruvate carboxylase, propionyl-CoA carboxylase, methylcrotonyl-CoA carboxylase, geranyl-CoA carboxylase...; Region: biotinyl_domain; cd06850 456827004253 carboxyltransferase (CT) interaction site; other site 456827004254 biotinylation site [posttranslational modification]; other site 456827004255 The biotinyl-domain or biotin carboxyl carrier protein (BCCP) domain is present in all biotin-dependent enzymes, such as acetyl-CoA carboxylase, pyruvate carboxylase, propionyl-CoA carboxylase, methylcrotonyl-CoA carboxylase, geranyl-CoA carboxylase...; Region: biotinyl_domain; cd06850 456827004256 carboxyltransferase (CT) interaction site; other site 456827004257 biotinylation site [posttranslational modification]; other site 456827004258 subunit; Region: OAD_beta; cl00816 456827004259 Phosphoglycerate dehydrogenase and related dehydrogenases [Amino acid transport and metabolism]; Region: SerA; COG0111 456827004260 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 456827004261 Predicted translation initiation factor 2B subunit, eIF-2B alpha/beta/delta family [Translation, ribosomal structure and biogenesis]; Region: COG0182; cl00348 456827004262 Initiation factor 2 subunit family; Region: IF-2B; pfam01008 456827004263 N-ethylammeline chlorohydrolase; Provisional; Region: PRK09045 456827004264 TRZ/ATZ family contains enzymes from the atrazine degradation pathway and related hydrolases. Atrazine, a chlorinated herbizide, can be catabolized by a variety of different bacteria. The first three steps of the atrazine dehalogenation pathway are...; Region: ATZ_TRZ_like; cd01298 456827004265 active site 456827004266 putative substrate binding pocket [chemical binding]; other site 456827004267 Small protein B (SmpB) is a component of the trans-translation system in prokaryotes for releasing stalled ribosome from damaged messenger RNAs; Region: SmpB; cd09294 456827004268 SmpB-tmRNA interface; other site 456827004269 xanthine dehydrogenase, small subunit; Region: xanthine_xdhA; TIGR02963 456827004270 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cl00159 456827004271 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 456827004272 CO dehydrogenase flavoprotein C-terminal domain; Region: CO_deh_flav_C; pfam03450 456827004273 xanthine dehydrogenase, molybdopterin binding subunit; Region: xanthine_xdhB; TIGR02965 456827004274 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; pfam01315 456827004275 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 456827004276 Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all...; Region: FN3; cd00063 456827004277 Interdomain contacts; other site 456827004278 Cytokine receptor motif; other site 456827004279 Predicted ATPase with chaperone activity [Posttranslational modification, protein turnover, chaperones]; Region: COG0606 456827004280 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 456827004281 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 456827004282 carbamoyl phosphate synthase-like protein; Provisional; Region: PRK12767 456827004283 diaminopimelate decarboxylase; Region: lysA; TIGR01048 456827004284 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme MccE; Region: PLPDE_III_MccE_like; cd06841 456827004285 dimer interface [polypeptide binding]; other site 456827004286 active site 456827004287 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 456827004288 catalytic residues [active] 456827004289 substrate binding site [chemical binding]; other site 456827004290 Urea transporter; Region: UT; cl01829 456827004291 Peptidase family M23; Region: Peptidase_M23; pfam01551 456827004292 putative PEP-CTERM system TPR-repeat lipoprotein; Region: PEP_TPR_lipo; TIGR02917 456827004293 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi...; Region: TPR; cd00189 456827004294 binding surface 456827004295 TPR motif; other site 456827004296 CARDB; Region: CARDB; pfam07705 456827004297 CARDB; Region: CARDB; pfam07705 456827004298 The M14 family of metallocarboxypeptidases (MCPs) are zinc-binding carboxypeptidases (CPs) which hydrolyze single, C-terminal amino acids from polypeptide chains, and have a recognition site for the free C-terminal carboxyl group, which is a key...; Region: Peptidase_M14_like; cl11393 456827004299 The M14 family of metallocarboxypeptidases (MCPs) are zinc-binding carboxypeptidases (CPs) which hydrolyze single, C-terminal amino acids from polypeptide chains, and have a recognition site for the free C-terminal carboxyl group, which is a key...; Region: Peptidase_M14_like; cl11393 456827004300 The M14 family of metallocarboxypeptidases (MCPs) are zinc-binding carboxypeptidases (CPs) which hydrolyze single, C-terminal amino acids from polypeptide chains, and have a recognition site for the free C-terminal carboxyl group, which is a key...; Region: Peptidase_M14_like; cl11393 456827004301 Flagellar hook capping protein; Region: FlgD; cl04347 456827004302 magnesium/nickel/cobalt transporter CorA; Provisional; Region: PRK11085; cl00459 456827004303 CorA-like Mg2+ transporter protein; Region: CorA; pfam01544 456827004304 Tunnelling fold (T-fold). The five known T-folds are found in five different enzymes with different functions: dihydroneopterin-triphosphate epimerase (DHNTPE), dihydroneopterin aldolase (DHNA) , GTP cyclohydrolase I (GTPCH-1), 6-pyrovoyl...; Region: TFold; cl00263 456827004305 active site 456827004306 The YihA (EngB) subfamily. This subfamily of GTPases is typified by the E. coli YihA, an essential protein involved in cell division control. YihA and its orthologs are small proteins that typically contain less than 200 amino acid residues and...; Region: YihA_EngB; cd01876 456827004307 G1 box; other site 456827004308 GTP/Mg2+ binding site [chemical binding]; other site 456827004309 Switch I region; other site 456827004310 G2 box; other site 456827004311 G3 box; other site 456827004312 Switch II region; other site 456827004313 G4 box; other site 456827004314 G5 box; other site 456827004315 NAD(FAD)-utilizing enzyme possibly involved in translation [Translation, ribosomal structure and biogenesis]; Region: Gid; cl11520 456827004316 Flavin-dependent tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA [Cell cycle control, cell division, chromosome partitioning]; Region: GidA; COG0445 456827004317 CMP-KDO synthetase catalyzes the activation of KDO which is an essential component of the lipopolysaccharide; Region: CMP-KDO-Synthetase; cd02517 456827004318 Ligand binding site [chemical binding]; other site 456827004319 oligomer interface [polypeptide binding]; other site 456827004320 5'-nucleotidase/2',3'-cyclic phosphodiesterase and related esterases [Nucleotide transport and metabolism]; Region: UshA; COG0737 456827004321 Escherichia coli UshA-like family, N-terminal metallophosphatase domain; Region: MPP_UshA_N_like; cd00845 456827004322 active site 456827004323 metal binding site [ion binding]; metal-binding site 456827004324 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 456827004325 Nitrilase superfamily, including nitrile- or amide-hydrolyzing enzymes and amide-condensing enzymes; Region: nitrilase; cd07197 456827004326 active site 456827004327 catalytic triad [active] 456827004328 dimer interface [polypeptide binding]; other site 456827004329 D-Tyrosyl-tRNAtyr deacylases; a class of tRNA-dependent hydrolases which are capable of hydrolyzing the ester bond of D-Tyrosyl-tRNA reducing the level of cellular D-Tyrosine while recycling the peptidyl-tRNA; found in bacteria and in eukaryotes but...; Region: Dtyr_deacylase; cd00563 456827004330 putative active site [active] 456827004331 dimerization interface [polypeptide binding]; other site 456827004332 putative tRNAtyr binding site [nucleotide binding]; other site 456827004333 Cell cycle protein; Region: FTSW_RODA_SPOVE; cl00511 456827004334 penicillin-binding protein 2; Region: pbp2_mrdA; TIGR03423 456827004335 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 456827004336 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01039 456827004337 rod shape-determining protein MreD; Region: MreD; cl01087 456827004338 F420-0:Gamma-glutamyl ligase; Region: F420_ligase; cl00644 456827004339 rod shape-determining protein MreC; Region: MreC; pfam04085 456827004340 rod shape-determining protein MreB; Provisional; Region: PRK13927 456827004341 Cell division protein FtsA; Region: FtsA; cl11496 456827004342 Divergent polysaccharide deacetylase; Region: Polysacc_deac_2; cl04721 456827004343 Uncharacterized ACR, COG1430; Region: DUF192; cl00627 456827004344 Carboxypeptidase (CP) N/E-like subfamily of the M14 family of metallocarboxypeptidases (MCPs). The M14 family are zinc-binding CPs which hydrolyze single, C-terminal amino acids from polypeptide chains, and have a recognition site for the free C-...; Region: M14_CP_N-E_like; cd03858 456827004345 active site 456827004346 Zn-binding site [ion binding]; other site 456827004347 Immune inhibitor A peptidase M6; Region: Peptidase_M6; cl11525 456827004348 flagellar basal body rod modification protein; Reviewed; Region: flgD; PRK06655 456827004349 TonB-dependent receptor; Region: TonB-Xanth-Caul; TIGR01782 456827004350 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy)...; Region: AdoMet_MTases; cl12011 456827004351 Cupin domain; Region: Cupin_2; cl09118 456827004352 riboflavin biosynthesis protein RibD; Region: eubact_ribD; TIGR00326 456827004353 Riboflavin-specific deaminase. Riboflavin biosynthesis protein RibD (Diaminohydroxyphosphoribosylaminopyrimidine deaminase) catalyzes the deamination of 2,5-diamino-6-ribosylamino-4(3H)-pyrimidinone 5'-phosphate, which is an intermediate step in the...; Region: Riboflavin_deaminase-reductase; cd01284 456827004354 catalytic motif [active] 456827004355 Zn binding site [ion binding]; other site 456827004356 Dihydrofolate reductase (DHFR). Reduces 7,8-dihydrofolate to 5,6,7,8-tetrahydrofolate with NADPH as a cofactor. This is an essential step in the biosynthesis of deoxythymidine phosphate since 5,6,7,8-tetrahydrofolate is required to regenerate 5,10-...; Region: DHFR; cl00161 456827004357 mitochondrial precursor proteins import receptor (72 kDa mitochondrial outermembrane protein) (mitochondrial import receptor for the ADP/ATP carrier) (translocase of outermembrane tom70); Region: 3a0801s09; TIGR00990 456827004358 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi...; Region: TPR; cd00189 456827004359 TPR motif; other site 456827004360 binding surface 456827004361 Ribosomal protein S21; Region: Ribosomal_S21; cl00529 456827004362 Colicin V production protein; Region: Colicin_V; cl00567 456827004363 recombination and DNA strand exchange inhibitor protein; Reviewed; Region: PRK00409 456827004364 MutS2 homologs in bacteria and eukaryotes. The MutS protein initiates DNA mismatch repair by recognizing mispaired and unpaired bases embedded in duplex DNA and activating endo- and exonucleases to remove the mismatch. Members of the MutS family also...; Region: ABC_MutS2; cd03280 456827004365 Walker A/P-loop; other site 456827004366 ATP binding site [chemical binding]; other site 456827004367 Q-loop/lid; other site 456827004368 ABC transporter signature motif; other site 456827004369 Walker B; other site 456827004370 D-loop; other site 456827004371 H-loop/switch region; other site 456827004372 Smr domain; Region: Smr; cl02619 456827004373 CHC2 zinc finger; Region: zf-CHC2; cl02597 456827004374 DNA primase; Validated; Region: dnaG; PRK05667 456827004375 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 456827004376 TOPRIM_DnaG_primases: The topoisomerase-primase (TORPIM) nucleotidyl transferase/hydrolase domain found in the active site regions of proteins similar to Escherichia coli DnaG. Primases synthesize RNA primers for the initiation of DNA replication. DnaG...; Region: TOPRIM_DnaG_primases; cd03364 456827004377 active site 456827004378 metal binding site [ion binding]; metal-binding site 456827004379 interdomain interaction site; other site 456827004380 RNA polymerase sigma factor RpoD; Validated; Region: PRK05658 456827004381 Sigma-70 factor, region 1.1; Region: Sigma70_r1_1; pfam03979 456827004382 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 456827004383 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 456827004384 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 456827004385 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial...; Region: Sigma70_r4; cd06171 456827004386 DNA binding residues [nucleotide binding] 456827004387 The M14 family of metallocarboxypeptidases (MCPs) are zinc-binding carboxypeptidases (CPs) which hydrolyze single, C-terminal amino acids from polypeptide chains, and have a recognition site for the free C-terminal carboxyl group, which is a key...; Region: Peptidase_M14_like; cd00596 456827004388 active site 456827004389 Zn-binding site [ion binding]; other site 456827004390 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 456827004391 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 456827004392 Walker A/P-loop; other site 456827004393 ATP binding site [chemical binding]; other site 456827004394 Q-loop/lid; other site 456827004395 ABC transporter signature motif; other site 456827004396 Walker B; other site 456827004397 D-loop; other site 456827004398 H-loop/switch region; other site 456827004399 ABC transporter; Region: ABC_tran_2; pfam12848 456827004400 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by...; Region: ABCF_EF-3; cd03221 456827004401 Macro domain, Appr-1'-pase_like family. The macro domain is a high-affinity ADP-ribose binding module found in a variety of proteins as a stand-alone domain or in combination with other domains like in histone macroH2A and some PARPs (poly ADP-ribose...; Region: Macro_Appr_pase_like; cd02908 456827004402 putative ADP-ribose binding site [chemical binding]; other site 456827004403 putative active site [active] 456827004404 Flagellar hook capping protein; Region: FlgD; cl04347 456827004405 This is a family of oligosaccharide phosphorylases. It includes yeast and mammalian glycogen phosphorylases, plant starch/glucan phosphorylase, as well as the maltodextrin phosphorylases of bacteria. The members of this family catalyze the breakdown of...; Region: GT1_Glycogen_Phosphorylase; cd04300 456827004406 homodimer interface [polypeptide binding]; other site 456827004407 glycogen/starch/alpha-glucan phosphorylases; Region: P_ylase; TIGR02093 456827004408 active site pocket [active] 456827004409 DGC domain; Region: DGC; cl01742 456827004410 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 456827004411 dimerization interface [polypeptide binding]; other site 456827004412 putative DNA binding site [nucleotide binding]; other site 456827004413 putative Zn2+ binding site [ion binding]; other site 456827004414 Archaeal ATPase; Region: Arch_ATPase; pfam01637 456827004415 Archaea bacterial proteins of unknown function; Region: DUF234; pfam03008 456827004416 Predicted extracellular nuclease [General function prediction only]; Region: COG2374 456827004417 fructose-bisphosphate aldolase; Provisional; Region: PRK09197 456827004418 TIM barrel proteins share a structurally conserved phosphate binding motif and in general share an eight beta/alpha closed barrel structure. Specific for this family is the conserved phosphate binding site at the edges of strands 7 and 8. The phosphate...; Region: TIM_phosphate_binding; cl09108 456827004419 active site 456827004420 intersubunit interface [polypeptide binding]; other site 456827004421 zinc binding site [ion binding]; other site 456827004422 Na+ binding site [ion binding]; other site 456827004423 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy)...; Region: AdoMet_MTases; cl12011 456827004424 Restriction endonuclease BglII; Region: Endonuc-BglII; pfam09195 456827004425 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 456827004426 glyceraldehyde-3-phosphate dehydrogenase, type I; Region: GAPDH-I; TIGR01534 456827004427 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 456827004428 polysaccharide deactylase family protein, PEP-CTERM locus subfamily; Region: pepcterm_polyde; TIGR03006 456827004429 Polysaccharide deacetylase; Region: Polysacc_deac_1; cl12061 456827004430 Domain of unknown function (DUF3473); Region: DUF3473; pfam11959 456827004431 Predicted methyltransferase [General function prediction only]; Region: COG2520 456827004432 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy)...; Region: AdoMet_MTases; cd02440 456827004433 S-adenosylmethionine binding site [chemical binding]; other site 456827004434 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 456827004435 The N-terminal ATPase domain of the maltose transporter, MalK. ATP binding cassette (ABC) proteins function from bacteria to human, mediating the translocation of substances into and out of cells or organelles. ABC transporters contain two...; Region: ABC_MalK_N; cd03301 456827004436 Walker A/P-loop; other site 456827004437 ATP binding site [chemical binding]; other site 456827004438 Q-loop/lid; other site 456827004439 ABC transporter signature motif; other site 456827004440 Walker B; other site 456827004441 D-loop; other site 456827004442 H-loop/switch region; other site 456827004443 TOBE domain; Region: TOBE_2; cl01440 456827004444 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 456827004445 metal binding site [ion binding]; metal-binding site 456827004446 active site 456827004447 I-site; other site 456827004448 Septum formation initiator; Region: DivIC; cl11433 456827004449 Uncharacterized conserved protein [Function unknown]; Region: COG2006 456827004450 Domain of unknown function (DUF362); Region: DUF362; pfam04015 456827004451 Uncharacterized Fe-S center protein [General function prediction only]; Region: COG2768 456827004452 4Fe-4S binding domain; Region: Fer4; cl02805 456827004453 adenylosuccinate synthetase; Provisional; Region: PRK01117 456827004454 Adenylosuccinate synthetase (AdSS) catalyzes the first step in the de novo biosynthesis of AMP. IMP and L-aspartate are conjugated in a two-step reaction accompanied by the hydrolysis of GTP to GDP in the presence of Mg2+. In the first step, the r-...; Region: AdSS; cd03108 456827004455 GDP-binding site [chemical binding]; other site 456827004456 ACT binding site; other site 456827004457 IMP binding site; other site 456827004458 Uncharacterized conserved protein [Function unknown]; Region: COG5316 456827004459 Alpha-crystallin domain (ACD) of alpha-crystallin-type small(s) heat shock proteins (Hsps). sHsps are small stress induced proteins with monomeric masses between 12 -43 kDa, whose common feature is the Alpha-crystallin domain (ACD). sHsps are...; Region: ACD_sHsps-like; cd06464 456827004460 putative dimer interface [polypeptide binding]; other site 456827004461 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Provisional; Region: PRK05447 456827004462 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Region: DXP_reductoisom; pfam02670 456827004463 1-deoxy-D-xylulose 5-phosphate reductoisomerase C-terminal; Region: DXP_redisom_C; pfam08436 456827004464 Nicotinate-nucleotide pyrophosphorylase [Coenzyme metabolism]; Region: NadC; COG0157 456827004465 Quinolinate phosphoribosyl transferase (QAPRTase or QPRTase), also called nicotinate-nucleotide pyrophosphorylase, is involved in the de novo synthesis of NAD in both prokaryotes and eukaryotes. It catalyses the reaction of quinolinic acid (QA) with 5-...; Region: QPRTase; cd01572 456827004466 dimerization interface [polypeptide binding]; other site 456827004467 active site 456827004468 Zn-ribbon protein, possibly nucleic acid-binding [General function prediction only]; Region: COG1579 456827004469 Putative zinc ribbon domain; Region: DUF164; pfam02591 456827004470 Serine dehydrogenase proteinase; Region: SDH_sah; pfam01972 456827004471 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase...; Region: crotonase-like; cl14780 456827004472 active site 456827004473 Plasmid stabilisation system protein; Region: Plasmid_stabil; cl11422 456827004474 Nudix hydrolase is a superfamily of enzymes found in all three kingdoms of life, and it catalyzes the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or...; Region: Nudix_Hydrolase; cl00447 456827004475 nudix motif; other site 456827004476 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 456827004477 Trypsin-like serine protease; Many of these are synthesized as inactive precursor zymogens that are cleaved during limited proteolysis to generate their active forms. Alignment contains also inactive enzymes that have substitutions of the catalytic...; Region: Tryp_SPc; cl00149 456827004478 PDZ domain of tryspin-like serine proteases, such as DegP/HtrA, which are oligomeric proteins involved in heat-shock response, chaperone function, and apoptosis. May be responsible for substrate recognition and/or binding, as most PDZ domains bind C-...; Region: PDZ_serine_protease; cd00987 456827004479 protein binding site [polypeptide binding]; other site 456827004480 PDZ domain of tryspin-like serine proteases, such as DegP/HtrA, which are oligomeric proteins involved in heat-shock response, chaperone function, and apoptosis. May be responsible for substrate recognition and/or binding, as most PDZ domains bind C-...; Region: PDZ_serine_protease; cd00987 456827004481 protein binding site [polypeptide binding]; other site 456827004482 The M14 family of metallocarboxypeptidases (MCPs) are zinc-binding carboxypeptidases (CPs) which hydrolyze single, C-terminal amino acids from polypeptide chains, and have a recognition site for the free C-terminal carboxyl group, which is a key...; Region: Peptidase_M14_like; cl11393 456827004483 The M14 family of metallocarboxypeptidases (MCPs) are zinc-binding carboxypeptidases (CPs) which hydrolyze single, C-terminal amino acids from polypeptide chains, and have a recognition site for the free C-terminal carboxyl group, which is a key...; Region: Peptidase_M14_like; cl11393 456827004484 RecX family; Region: RecX; cl00936 456827004485 recombinase A; Provisional; Region: recA; PRK09354 456827004486 RecA is a bacterial enzyme which has roles in homologous recombination, DNA repair, and the induction of the SOS response. RecA couples ATP hydrolysis to DNA strand exchange; Region: recA; cd00983 456827004487 hexamer interface [polypeptide binding]; other site 456827004488 Walker A motif; other site 456827004489 ATP binding site [chemical binding]; other site 456827004490 Walker B motif; other site 456827004491 2'-5' RNA ligase; Region: 2_5_ligase; TIGR02258 456827004492 2',5' RNA ligase family; Region: 2_5_RNA_ligase; pfam02834 456827004493 Adenosine specific kinase; Region: Adenosine_kin; cl00796 456827004494 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy)...; Region: AdoMet_MTases; cl12011 456827004495 PAS domain S-box; Region: sensory_box; TIGR00229 456827004496 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 456827004497 putative active site [active] 456827004498 heme pocket [chemical binding]; other site 456827004499 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 456827004500 metal binding site [ion binding]; metal-binding site 456827004501 active site 456827004502 I-site; other site 456827004503 metallo-beta-lactamase/flavodoxin domain-containing protein; Provisional; Region: PRK11921 456827004504 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 456827004505 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 456827004506 formamidopyrimidine/5-formyluracil/ 5-hydroxymethyluracil DNA glycosylase; Validated; Region: PRK01103 456827004507 N-terminal domain of Escherichia coli Fpg1/MutM and related bacterial DNA glycosylases; Region: EcFpg-like_N; cd08966 456827004508 DNA binding site [nucleotide binding] 456827004509 catalytic residue [active] 456827004510 H2TH interface [polypeptide binding]; other site 456827004511 putative catalytic residues [active] 456827004512 turnover-facilitating residue; other site 456827004513 intercalation triad [nucleotide binding]; other site 456827004514 8OG recognition residue [nucleotide binding]; other site 456827004515 putative reading head residues; other site 456827004516 Formamidopyrimidine-DNA glycosylase H2TH domain; Region: H2TH; pfam06831 456827004517 Transglutaminase-like superfamily; Region: Transglut_core; cl10469 456827004518 helicase/secretion neighborhood putative DEAH-box helicase; Region: DECH_helic; TIGR03817 456827004519 DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region; Region: DEXDc; cd00046 456827004520 putative Mg++ binding site [ion binding]; other site 456827004521 Helicase superfamily c-terminal domain; associated with DEXDc-, DEAD-, and DEAH-box proteins, yeast initiation factor 4A, Ski2p, and Hepatitis C virus NS3 helicases; this domain is found in a wide variety of helicases and helicase related proteins; may...; Region: HELICc; cd00079 456827004522 nucleotide binding region [chemical binding]; other site 456827004523 ATP-binding site [chemical binding]; other site 456827004524 HNH nucleases; HNH endonuclease signature which is found in viral, prokaryotic, and eukaryotic proteins. The alignment includes members of the large group of homing endonucleases, yeast intron 1 protein, MutS, as well as bacterial colicins, pyocins...; Region: HNHc; cd00085 456827004525 active site 456827004526 Domain of unknown function (DUF1998); Region: DUF1998; pfam09369 456827004527 TlpA-like family; composed of TlpA, ResA, DsbE and similar proteins. TlpA, ResA and DsbE are bacterial protein disulfide reductases with important roles in cytochrome maturation. They are membrane-anchored proteins with a soluble TRX domain containing...; Region: TlpA_like_family; cd02966 456827004528 catalytic residues [active] 456827004529 Cytochrome c biogenesis protein [Posttranslational modification, protein turnover, chaperones]; Region: CcdA; COG0785 456827004530 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl00515 456827004531 DsbD gamma family; DsbD gamma is the C-terminal periplasmic domain of the bacterial protein DsbD. It contains a CXXC motif in a TRX fold and shuttles the reducing potential from the membrane domain (DsbD beta) to the N-terminal periplasmic domain (DsbD...; Region: DsbDgamma; cd02953 456827004532 DsbD alpha interface [polypeptide binding]; other site 456827004533 catalytic residues [active] 456827004534 Ribosome recycling factor (RRF). Ribosome recycling factor dissociates the posttermination complex, composed of the ribosome, deacylated tRNA, and mRNA, after termination of translation. Thus ribosomes are 'recycled' and ready for another round of...; Region: RRF; cd00520 456827004535 hinge region; other site 456827004536 UMP kinase (UMPK)-Ec, the microbial/chloroplast uridine monophosphate kinase (uridylate kinase) enzyme that catalyzes UMP phosphorylation and plays a key role in pyrimidine nucleotide biosynthesis; regulation of this process is via feed-back control...; Region: AAK_UMPK-PyrH-Ec; cd04254 456827004537 putative nucleotide binding site [chemical binding]; other site 456827004538 uridine monophosphate binding site [chemical binding]; other site 456827004539 homohexameric interface [polypeptide binding]; other site 456827004540 elongation factor Ts; Reviewed; Region: tsf; PRK12332 456827004541 Ubiquitin Associated domain. The UBA domain is a commonly occurring sequence motif in some members of the ubiquitination pathway, UV excision repair proteins, and certain protein kinases. Although its specific role is so far unknown, it has been...; Region: UBA; cl00153 456827004542 Elongation factor TS; Region: EF_TS; pfam00889 456827004543 Ribosomal protein S2 (RPS2), involved in formation of the translation initiation complex, where it might contact the messenger RNA and several components of the ribosome. It has been shown that in Escherichia coli RPS2 is essential for the binding of...; Region: RPS2; cd01425 456827004544 rRNA interaction site [nucleotide binding]; other site 456827004545 S8 interaction site; other site 456827004546 putative laminin-1 binding site; other site 456827004547 Ribosomal protein S9/S16; Region: Ribosomal_S9; cl00334 456827004548 Ribosomal protein L13. Protein L13, a large ribosomal subunit protein, is one of five proteins required for an early folding intermediate of 23S rRNA in the assembly of the large subunit. L13 is situated on the bottom of the large subunit, near the...; Region: Ribosomal_L13; cd00392 456827004549 23S rRNA interface [nucleotide binding]; other site 456827004550 L3 interface [polypeptide binding]; other site 456827004551 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 456827004552 This family is comprised of MJ0796 ATP-binding cassette, macrolide-specific ABC-type efflux carrier (MacAB), and proteins involved in cell division (FtsE), and release of liporoteins from the cytoplasmic membrane (LolCDE). They are clustered together...; Region: ABC_MJ0796_Lo1CDE_FtsE; cd03255 456827004553 Walker A/P-loop; other site 456827004554 ATP binding site [chemical binding]; other site 456827004555 Q-loop/lid; other site 456827004556 ABC transporter signature motif; other site 456827004557 Walker B; other site 456827004558 D-loop; other site 456827004559 H-loop/switch region; other site 456827004560 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 456827004561 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 456827004562 FtsX-like permease family; Region: FtsX; pfam02687 456827004563 Ribonuclease BN-like family; Region: Ribonuclease_BN; cl07918 456827004564 bifunctional phosphoribosylaminoimidazolecarboxamide formyltransferase/IMP cyclohydrolase; Provisional; Region: purH; PRK00881 456827004565 Inosine monophosphate cyclohydrolase domain. This is the N-terminal domain in the purine biosynthesis pathway protein ATIC (purH). The bifunctional ATIC protein contains a C-terminal ATIC formylase domain that formylates 5-aminoimidazole-4-carboxamide-; Region: IMPCH; cd01421 456827004566 purine monophosphate binding site [chemical binding]; other site 456827004567 dimer interface [polypeptide binding]; other site 456827004568 putative catalytic residues [active] 456827004569 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; cl03362 456827004570 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; cl03362 456827004571 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy)...; Region: AdoMet_MTases; cl12011 456827004572 signal peptide peptidase SppA, 67K type; Region: SppA_67K; TIGR00705 456827004573 Signal peptide peptidase A (SppA) 67K type, a serine protease, has catalytic Ser-Lys dyad; Region: S49_SppA_67K_type; cd07018 456827004574 tandem repeat interface [polypeptide binding]; other site 456827004575 oligomer interface [polypeptide binding]; other site 456827004576 active site residues [active] 456827004577 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 456827004578 tandem repeat interface [polypeptide binding]; other site 456827004579 oligomer interface [polypeptide binding]; other site 456827004580 active site residues [active] 456827004581 ribonuclease, Rne/Rng family; Region: RNaseEG; TIGR00757 456827004582 S1_RNase_E: RNase E and RNase G, S1-like RNA-binding domain. RNase E is an essential endoribonuclease in the processing and degradation of RNA. In addition to its role in mRNA degradation, RNase E has also been implicated in the processing of rRNA, and...; Region: S1_RNase_E; cd04453 456827004583 homodimer interface [polypeptide binding]; other site 456827004584 oligonucleotide binding site [chemical binding]; other site 456827004585 FeoA domain; Region: FeoA; cl00838 456827004586 Fe2+ transport system protein B [Inorganic ion transport and metabolism]; Region: FeoB; COG0370 456827004587 Ferrous iron transport protein B (FeoB) subfamily. E. coli has an iron(II) transport system, known as feo, which may make an important contribution to the iron supply of the cell under anaerobic conditions. FeoB has been identified as part of this...; Region: FeoB; cd01879 456827004588 G1 box; other site 456827004589 GTP/Mg2+ binding site [chemical binding]; other site 456827004590 Switch I region; other site 456827004591 G2 box; other site 456827004592 G3 box; other site 456827004593 Switch II region; other site 456827004594 G4 box; other site 456827004595 G5 box; other site 456827004596 Nucleoside recognition; Region: Gate; cl00486 456827004597 Ferrous iron transport protein B C terminus; Region: FeoB_C; pfam07664 456827004598 Nucleoside recognition; Region: Gate; cl00486 456827004599 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 456827004600 putative DNA binding helix; other site 456827004601 metal binding site 2 [ion binding]; metal-binding site 456827004602 metal binding site 1 [ion binding]; metal-binding site 456827004603 dimer interface [polypeptide binding]; other site 456827004604 structural Zn2+ binding site [ion binding]; other site